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CXCL12 Gene

protein-coding GIFtS: 60

GC10M041391

chemokine (C-X-C motif) ligand 12
(Previous name: stromal cell-derived factor 1 )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbols: SDF1A, SDF1B, SDF1)

		Products

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc , and/or ⁷Ensembl, ⁸miRBase)
About This Section

Aliases & Descriptions
chemokine (C-X-C motif) ligand 12¹ ²		SDF1B² ³
PBSF¹ ² ³		TLSF-b¹
SDF1² ³ ⁵		SDF-1b¹
TPAR1¹ ²		TLSF-a¹
SCYB12¹ ²		SDF-1a¹
stromal cell-derived factor 1¹ ²		TLSF²
Pre-B cell growth-stimulating factor² ³		hSDF-1³
Intercrine reduced in hepatomas² ³		SDF-1³
SDF1A² ³		hIRH³
IRH² ³		C-X-C motif chemokine 12³

External Ids:	HGNC: 10672¹	Entrez Gene: 6387²	Ensembl: ENSG00000107562⁷	UniProtKB: P48061³

Export aliases for CXCL12 gene to outside databases

Previous GC identifers: GC10M044154 GC10M044334 GC10M044640 GC10M044149 GC10M044185 GC10M044865

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for CXCL12:

This gene encodes a stromal cell-derived alpha chemokine member of the intercrine family. This gene product and its

receptor CXCR4 can activate lymphocytes and have been implicated in the metastasis of some cancers such as breast

cancer. Mutations in this gene are associated with resistance to human immunodeficiency virus type 1 infections.

Multiple transcript variants encoding different isoforms have been found for this gene.

UniProtKB/Swiss-Prot: SDF1_HUMAN, P48061

Function: Chemoattractant active on T-lymphocytes, monocytes, but not neutrophils. Activates the C-X-C chemokine

receptor CXCR4 to induce a rapid and transient rise in the level of intracellular calcium ions and chemotaxis.

SDF-1-beta(3-72) and SDF-1-alpha(3-67) show a reduced chemotactic activity. Binding to cell surface proteoglycans

seems to inhibit formation of SDF-1-alpha(3-67) and thus to preserve activity on local sites. Acts as a positive

regulator of monocyte migration and a negative regulator of monocyte adhesion via the Lyn kinase. Stimulates migration

of monocytes through its receptor, CXCR4, and decreases monocyte adherence to surfaces coated with ICAM-1, a ligand

for beta-2 integrins. SDF1A/CXCR4 signaling axis inhibits beta-2 integrin LFA-1 mediated adhesion of monocytes to

ICAM-1 through Lyn kinase

Gene Wiki entry for CXCL12 (Stromal cell-derived factor-1)

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 60), Regulatory elements and Epigenetics data according to Qiagen and/or SABiosciences)
About This Section

Regulatory elements:

SABiosciences Regulatory transcription factor binding sites in the CXCL12 gene promoter:
         NF-kappaB1   CREB   STAT1beta   STAT1alpha   STAT1   deltaCREB   STAT5A   NF-1   NF-kappaB   NRSF form 2
         Other transcription factors

Search SABiosciences Chromatin IP Primers for CXCL12

Epigenetics:

QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays for CXCL12

Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 10q11.1 Ensembl cytogenetic band: 10q11.21 HGNC cytogenetic band: 10q11.1

CXCL12 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CXCL12 gene location

GeneLoc gene densities for chromosome 10 GeneLoc Exon Structure

GeneLoc location for GC10M041391: view genomic region (about GC identifiers)

Start:	41,391,949 bp from pter
End:	41,406,899 bp from pter
Size:	14,951 bases
Orientation:	minus strand

1 alternative location:

Chr10- 44,865,613-44,881,941

RefSeq DNA sequence:

NC_000010.10 NT_033985.7

(According to ¹UniProtKB, neXtProt, and/or Ensembl, Phosphorylation sites according to ²Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Millipore, Sigma-Aldrich, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, and/or ProSpec,
Biochemical Assays by Millipore, Sigma-Aldrich, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Dec 2010 and Entrez Gene, Antibodies by Millipore, Sigma-Aldrich, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, and/or Epitomics)
About This Section

UniProtKB/Swiss-Prot: SDF1_HUMAN, P48061 (See protein sequence)

Recommended Name: Stromal cell-derived factor 1 precursor

Size: 93 amino acids; 10666 Da

Subcellular location: Secreted

Sequence caution: Sequence=CAC10202.1; Type=Erroneous gene model prediction;

PDB structures from and Proteopedia :

1A15 (3D)

1QG7 (3D)

1SDF (3D)

1VMC (3D)

2J7Z (3D)

2K01 (3D)

2K03 (3D)

2K04 (3D)

2K05 (3D)

2KEC (3D)

2KED (3D)

2KEE (3D)

2NWG (3D)

2SDF (3D)

3GV3 (3D)

3HP3 (3D)

Secondary accessions: B2R4G0 Q9H554

Alternative splicing: 2 isoforms: P48061-1 P48061-2

Explore the universe of human proteins at neXtProt for CXCL12: NX_P48061

Post-translational modifications:

Processed forms SDF-1-beta(3-72) and SDF-1-alpha(3-67) are produced after secretion by proteolytic cleavage of isoforms

Beta and Alpha, respectively. The N-terminal processing is probably achieved by DPP4. Isoform Alpha is first cleaved

at the C-terminus to yield a SDF-1-alpha(1-67) intermediate before being processsed at the N-terminus. The C-terminal

processing of isoform Alpha is reduced by binding to heparin and, probably, cell surface proteoglycans¹

REFSEQ proteins (4 alternative transcripts):

NP_000600.1 NP_001029058.1 NP_001171605.1 NP_954637.1

ENSEMBL proteins:

ENSP00000363548 ENSP00000379139 ENSP00000379140 ENSP00000339913 ENSP00000379141 ENSP00000363551

Human Recombinant Proteins

	Millipore Purified and/or Recombinant CXCL12 Protein
	Sigma-Aldrich Proteins for CXCL12
	R&D Systems Recombinant & Natural Proteins for CXCL12 (CXCL12/SDF-1, CXCL12/SDF-1 alpha, CXCL12/SDF-1 beta)
	Browse recombinant and purified proteins available from Enzo Life Sciences
	Browse OriGene full length recombinant human proteins expressed in human HEK293 cells OriGene Protein Over-expression Lysate (see all 2): CXCL12
	GenScript Custom Purified and Recombinant Proteins Services for CXCL12
	Novus Biologicals Proteins for CXCL12
	Novus Biologicals Lysate for CXCL12
	Sino Biological Recombinant Protein for CXCL12
	ProSpec Recombinant Protein for CXCL12

3 Gene Ontology (GO) cellular component terms (GO ID links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005576	extracellular region	TAS	--
GO:0005615	extracellular space	IEA	--
GO:0005886	plasma membrane	--	--

About this table

CXCL12 for ontologies About GeneDecksing

Antibodies for CXCL12:

	Millipore Mono- and Polyclonal Antibodies for the study of CXCL12
	Sigma-Aldrich Antibodies for CXCL12
	R&D Systems Antibodies for CXCL12 (CXCL12/SDF-1, CXCL12/SDF-1 beta)
	Cell Signaling Technology (CST) Antibodies for CXCL12 (SDF-1)
	Browse OriGene Antibodies
	GenScript Custom Superior Antibodies Services for CXCL12
	Novus Biologicals Antibodies for CXCL12
	Browse antibodies at Epitomics

Assays for CXCL12:

	Browse Kits and Assays available from Millipore
	Browse ELISAs at Sigma-Aldrich
	OriGene Custom Immunoassay Development Browse OriGene Fluorogenic Cell Assay Kits
	R&D Systems Flow Cytometry Kits for CXCL12 (CXCL12/SDF-1, CXCL12/SDF-1 alpha) (see all)
	GenScript Custom Assay Services for CXCL12
	Browse Enzo Life Sciences for kits & assays
	Browse ELISAs and CLIAs at Uscn

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

CXCL12 for domains About GeneDecksing

2 InterPro domains/families:

IPR001811 Chemokine_IL8

IPR002473 C-X-C/Interlkn_8

Graphical View of Domain Structure for InterPro Entry P48061

ProtoNet protein and cluster: P48061

UniProtKB/Swiss-Prot: SDF1_HUMAN, P48061

Similarity: Belongs to the intercrine alpha (chemokine CxC) family

(According to UniProtKB, IUBMB,and/or Genatlas, Animal models from MGI Dec 24 2010,
shRNA from OriGene, Sigma-Aldrich, RNAi from Millipore, siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich, microRNA from Sigma-Aldrich, Qiagen, SABiosciences, Clones from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, Cell Lines from GenScript, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene.)
About This Section

UniProtKB/Swiss-Prot: SDF1_HUMAN, P48061

Function: Chemoattractant active on T-lymphocytes, monocytes, but not neutrophils. Activates the C-X-C chemokine

receptor CXCR4 to induce a rapid and transient rise in the level of intracellular calcium ions and chemotaxis.

SDF-1-beta(3-72) and SDF-1-alpha(3-67) show a reduced chemotactic activity. Binding to cell surface proteoglycans

seems to inhibit formation of SDF-1-alpha(3-67) and thus to preserve activity on local sites. Acts as a positive

regulator of monocyte migration and a negative regulator of monocyte adhesion via the Lyn kinase. Stimulates migration

of monocytes through its receptor, CXCR4, and decreases monocyte adherence to surfaces coated with ICAM-1, a ligand

for beta-2 integrins. SDF1A/CXCR4 signaling axis inhibits beta-2 integrin LFA-1 mediated adhesion of monocytes to

ICAM-1 through Lyn kinase

Inhib. RNA:		Browse for Gene Knock-down Tools from Millipore
		Browse Nano Scale siRNA at Sigma-Aldrich Sigma-Aldrich esiRNA and siRNA for CXCL12 Sigma-Aldrich shRNA Panels and shRNA for CXCL12
		OriGene 29mer shRNA kits in GFP-retroviral vector (see all 4): CXCL12 OriGene shRNA RFP (see all 4): CXCL12 OriGene basic RS shRNA (see all 4): CXCL12 OriGene siRNA (see all 4): CXCL12
		QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of CXCL12

miRNA:		Sigma-Aldrich microRNA Mimics for CXCL12 Browse microRNA target validation systems at Sigma-Aldrich
		QIAGEN Custom miScript Target Protector blocks miRNA-binding site of CXCL12
		8/21 SABiosciences Assays for microRNAs that regulate CXCL12 (see all 21):
		hsa-miR-623 hsa-miR-448 hsa-miR-520e hsa-miR-200a hsa-miR-221 hsa-miR-519a hsa-miR-141 hsa-miR-144

Gene
Editing:

Browse CompoZr Knockout ZFN at Sigma-Aldrich

Clones:		Browse Clones for the Expression of Recombinant Proteins Available from Millipore
		Browse iPSC Reprogramming Factors at Sigma-Aldrich
		OriGene GFP tagged cDNA clones in CMV expression vector (see all 4): CXCL12 OriGene Myc/DDK tagged cDNA clones in CMV expression vector (see all 4): CXCL12 OriGene untagged cDNA clones in CMV expression vector (see all 3): CXCL12 OriGene 3'-UTR clone (see all 3): CXCL12 Browse MicroRNA Expression Plasmids
		GenScript Custom cDNA clone Services for CXCL12
		Sino Biological Human cDNA Clone for CXCL12

Cell
Lines:

GenScript Custom overexpressing Cell Line Services for CXCL12

4 Gene Ontology (GO) molecular function terms (GO ID links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0004871	signal transducer activity	TAS	10802710
GO:0005102	receptor binding	TAS	10438529
GO:0008009	chemokine activity	IEA	--
GO:0008083	growth factor activity	IEA	--

About this table

CXCL12 for ontologies About GeneDecksing

Animal Models: 9 MGI mutant phenotypes (inferred from 3 alleles) (MGI details for Cxcl12):

cardiovascular system	hematopoietic system	immune system	lethality-prenatal/perinatal	life span-post-weaning/aging
liver/biliary system	nervous system	no phenotypic analysis	reproductive system

CXCL12 for phenotypes About GeneDecksing

(Pathways according to Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB, Sets of similar genes according to GeneDecks, PCR Arrays from SABiosciences, Proteins Network according to SABiosciences, Sigma-Aldrich, Interactions according to ¹UniProtKB, ²MINT, and/or ³STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene).
About This Section

CXCL12 for pathways About GeneDecksing

4 Millipore Pathways for CXCL12

	Chemotaxis CXCR4 signaling pathway
	Cell adhesion Integrin inside-out signaling
	Cytoskeleton remodeling Reverse signaling by ephrin B
	Apoptosis and survival Lymphotoxin-beta receptor signaling

5/7 Sigma-Aldrich "Your Favorite Gene" (powered by Ingenuity) Pathways for CXCL12 (see all 7)

	Ephrin Receptor Signaling
	Chemokine Signaling
	Role of Macrophages, Fibroblasts and Endothelial Cells in Rheumatoid Arthritis
	CXCR4 Signaling
	Atherosclerosis Signaling

5 Kegg Pathways (Kegg details for CXCL12):

	hsa04060 Cytokine-cytokine receptor interaction
	hsa04062 Chemokine signaling pathway
	hsa04360 Axon guidance
	hsa04670 Leukocyte transendothelial migration
	hsa04672 Intestinal immune network for IgA production

SABiosciences Pathway-Focused PCR Arrays including CXCL12 (see all 10): PAHS-011A PAHS-022A

Sigma-Aldrich "Your Favorite Gene" (powered by Ingenuity) Molecular Interaction Network for CXCL12

SABiosciences Gene Network Central^TM Interacting Genes and Proteins Network for CXCL12

5/71 Interacting proteins for CXCL12 (ENSP00000363548³ P48061²) via UniProtKB, MINT, and/or STRING (see all 71)

Interactant		Interaction Details
GeneCard	External ID(s)	Interaction Details
DPP4	P27487²	STRING: ENSP00000353731 MINT-6491448 MINT-6491442
DPP8	Q6V1X1²	MINT-6491388 MINT-6491407
CXCR4	ENSP00000241393³	STRING: ENSP00000241393
ADA	ENSP00000361965³	STRING: ENSP00000361965
ADRB2	ENSP00000305372³	STRING: ENSP00000305372

About this table

5/35 Gene Ontology (GO) biological process terms (GO ID links to tree view) (see all 35):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0001569	patterning of blood vessels	--	--
GO:0001666	response to hypoxia	--	--
GO:0001667	ameboidal cell migration	--	--
GO:0001764	neuron migration	--	--
GO:0001938	positive regulation of endothelial cell proliferation	--	--

About this table

CXCL12 for ontologies About GeneDecksing

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

CXCL12 for compounds About GeneDecksing

Browse Small Molecules at Sigma-Aldrich

Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for CXCL12
10/88 Novoseek chemical compound relationships for CXCL12 gene (see all 88)

Compound	-log (P-Val)	Hits	PubMed IDs for Articles with Shared Sentences (# sentences)
sdf 1	95	255	10413364 (10), 15808852 (9), 18698020 (9), 8751377 (8) (see all 82)
rantes	84.6	174	16011532 (11), 16343773 (4), 11064099 (4), 14717979 (3) (see all 99)
bicyclam	79.1	10	9733901 (1), 16675573 (1), 17959712 (1), 12677165 (1) (see all 8)
plerixafor	77.1	5	19834627 (1), 18940680 (1), 18691106 (1), 18847313 (1) (see all 5)
teck	74.5	9	19362302 (1), 9886241 (1), 10449163 (1), 18501472 (1) (see all 6)
vegf	69.4	316	19374809 (9), 19410951 (8), 12384916 (8), 18031819 (7) (see all 99)
ccl3	68.9	20	20003942 (2), 15542651 (2), 16969502 (2), 12534281 (1) (see all 15)
grobeta	67.4	1	19589793 (1)
matrigel	55.6	24	15059909 (2), 15582259 (2), 11063876 (2), 16278822 (2) (see all 17)
ly294002	54.6	11	16884765 (2), 12414810 (2), 20351091 (1), 18384792 (1) (see all 8)

About this table

(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 228 Homo sapiens; Dec 8 2010) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Millipore,
siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene, microRNA from Sigma-Aldrich, Qiagen, SABiosciences,
Tagged/untagged cDNA clones from OriGene, Sigma-Aldrich, GenScript, Primers from OriGene and/or SABiosciences)
About This Section

Inhib. RNA:		Browse for Gene Knock-down Tools from Millipore
		Browse Nano Scale siRNA at Sigma-Aldrich Sigma-Aldrich esiRNA and siRNA for CXCL12 Sigma-Aldrich shRNA Panels and shRNA for CXCL12
		OriGene 29mer shRNA kits in GFP-retroviral vector (see all 4): CXCL12 OriGene shRNA RFP (see all 4): CXCL12 OriGene basic RS shRNA (see all 4): CXCL12 OriGene siRNA (see all 4): CXCL12
		QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of CXCL12

miRNA:		Sigma-Aldrich microRNA Mimics for CXCL12 Browse microRNA target validation systems at Sigma-Aldrich
		QIAGEN Custom miScript Target Protector blocks miRNA-binding site of CXCL12
		8/21 SABiosciences Assays for microRNAs that regulate CXCL12 (see all 21):
		hsa-miR-623 hsa-miR-448 hsa-miR-520e hsa-miR-200a hsa-miR-221 hsa-miR-519a hsa-miR-141 hsa-miR-144

Clones:		Browse FLAG tag genes at Sigma-Aldrich
		OriGene GFP tagged cDNA clones in CMV expression vector (see all 4): CXCL12 OriGene Myc/DDK tagged cDNA clones in CMV expression vector (see all 4): CXCL12 OriGene untagged cDNA clones in CMV expression vector (see all 3): CXCL12 OriGene 3'-UTR Clone (see all 3): CXCL12 Browse OriGene MicroRNA Expression Plasmids
		GenScript Custom cDNA clone Services for CXCL12

Primers:		OriGene genome-wide validated SYBR primer pairs: CXCL12 Browse OriGene validated miRNA SYBR primer pairs
		SABiosciences RT² qPCR Primer Assay for CXCL12: PPH00528A

REFSEQ mRNAs for CXCL12 gene (4 alternative transcripts):

NM_000609.5 NM_001033886.2 NM_001178134.1 NM_199168.3

Additional cDNA sequence:

AJ227905.1 AK090482.1 AK124641.1 AK292628.1 AK311814.1 AL713778.1 AY644456.1 AY874118.1

BC031072.1 BC039893.1 CR450283.1 CR615181.1 DQ345517.1 DQ345518.1 DQ345519.1 DQ345520.1

L36033.1 L36034.1

16 DOTS entries:

DT.75167133 DT.95274185 DT.447215 DT.121284954 DT.121284964 DT.65284715 DT.100788017 DT.91803447

DT.92421328 DT.100788018 DT.100788016 DT.100810713 DT.91749901 DT.95274178 DT.95306903 DT.87016801

24/323 AceView cDNA sequences (see all 323):

AI277200 BQ722219 CA431576 AI857805 BI711077 CA426157 CR615181 BU617499

AA348089 BQ708000 AA978287 CA447400 AI802430 CA426017 NM_000609 F02492

CA413305 BU618117 BU735886 AU119967 AU118491 C02038 AI655374 AI539300

highest scoring ESTs for CXCL12:

L36033 AI015208 AI655759 AL538307 AW583054 BC039893 BM545450 BQ716869 BQ878801 BQ878939

Unigene Cluster for CXCL12:

Chemokine (C-X-C motif) ligand 12

Hs.522891 [show with all ESTs]

Unigene Representative Sequence: AK090482

GeneLoc Exon Structure

8 Ensembl transcripts including schematic representations, and UCSC links where relevant:

ENST00000374426(uc001jbh.2) ENST00000488591 ENST00000395793 ENST00000496375

ENST00000395794 ENST00000343575(uc001jbi.2) ENST00000395795 ENST00000374429(uc001jbf.2)

(Experimental results according to ¹GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to ²GeneAnnot , ³GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 228 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Primers from OriGene and/or SABiosciences )
About This Section

CXCL12 expression in normal and diseased human tissues

¹ / ² / ³

6 probe-sets matching CXCL12 gene

Affymetrix probe-set	Array	# genes	Sensitivity	Specificity	Correlation	Length	Gb_Accession	Consensus	Uniqueness	Score	Rank
Affymetrix probe-set	Array	GeneAnnot data			GeneNote data		GeneTide data
33834_at²^{, 3}	U95-A	1	1.00	1.00	0.95	1.06	L36033	1.00	0.90	0.95	1
32666_at²^{, 3}	U95-A	1	1.00	1.00	0.95	0.94	U19495	0.80	1.00	0.91	1
209687_at²^{, 3}	U133-A	1	1.00	1.00	--	--	U19495	0.80	1.00	0.91	1
203666_at²^{, 3}	U133-A	1	1.00	1.00	--	--	NM_000609	0.60	1.00	0.82	1
209687_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--
203666_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--

About this table

CXCL12 for expression About GeneDecksing

Data from Genenote (Publications) and GNF BioGPS
About these images

CXCL12 gene electronic northern expression

About these images

CGAP SAGE TAG: --

SOURCE GeneReport for Unigene cluster: Hs.522891

Primers:		OriGene genome-wide validated SYBR primer pairs: CXCL12 Browse OriGene validated miRNA SYBR primer pairs
		SABiosciences RT² qPCR Primer Assay for CXCL12: PPH00528A

SABiosciences Expression via Pathway-Focused PCR Arrays including CXCL12 (see all 10): PAHS-011A PAHS-022A

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD and/or ⁵MGI Dec 24 2010, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section

Orthologs for CXCL12 gene from 4 species

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
rat (Rattus norvegicus)	Cxcl12¹	--	chemokine (C-X-C motif) ligand 12 (stromal cell-derived more	91.6(n) 93.28(a)	24772 NM_001033883.1 NP_001029055.1
mouse (Mus musculus)	Cxcl12^{1 , 5}	6 (54.81 cM)⁵	chemokine (C-X-C motif) ligand 12^{1, 5}	92.72(n)¹ 94.96(a)¹	20315¹ NM_001012477.1¹ NP_001012495.1¹ AA387196⁵ AI174028⁵ (see all 27)
chicken (Gallus gallus)	CXCL12¹	--	chemokine (C-X-C motif) ligand 12 (stromal cell-derived more	75.28(n) 73.03(a)	395180 NM_204510.1 NP_989841.1
African clawed frog (Xenopus laevis)	MGC68770²	--	hypothetical protein MGC68770	72.98(n)	AJ278857.1

About this table Species with no ortholog for CXCL12

ENSEMBL Gene Tree for CXCL12 (if available)

(Paralogs according to ¹HomoloGene
and ²Ensembl, Pseudogenes according to ³Pseudogene.org)
About This Section

(SNPs according to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Resequencing Primers from Qiagen)
About This Section

SNP ID	Valid	Chr 10 pos	Sequence	Recs	AA Chg	Type	More	Recs	Pop	Total sample
Genomic Data				Transcription Related Data				Allele Frequencies
			--	--	--		--	--
rs2522^1,2	C,F,A,	44867304(+)	`AACCCA/GCAAGT`	2	--	ut3¹		20	EU NA NS EA	1692
rs7777^1,2	--	44865737(-)	`CGCAGC/TGTGCT`	2	--	ut3¹ ese³		1	MN	184
rs10347^1,2	--	44865752(-)	`AGGNCA/GATTCC`	2	--	ut3¹ ese³		1	MN	184
rs169097^1,2	C,F,A,H,	44868083(+)	`TTTGCG/AGGGCC`	2	--	ut3¹		26	MN NS EA NA WA	1668
rs197452^1,2	C,F,A,	44870240(+)	`GGATCC/TGGGTG`	1	--	int¹		18	NS EA NA WA	1370
rs266085^1,2	C,F,A,	44874253(+)	`AACACT/CCATCT`	4	--	int¹		11	EA NS NA WA	1846
rs266086^1,2	C,F,H,	44871833(+)	`CCCTGC/TTCTCA`	2	--	int¹		17	NA NS EA WA	702
rs266087^1,2	C,F,A,	44871062(+)	`AGGGCG/AGGCTG`	2	--	int¹ ng3¹		10	NS EA NA WA	568
rs266088^1,2	C,F,	44870015(+)	`AGCAGC/TGGGAA`	1	--	int¹		18	NS EA NA WA	1268
rs266089^1,2	C,F,A,H,	44869427(+)	`TCTTCG/ACTCTT`	1	--	int¹		19	NS EA NA WA	1018

About this table

HapMap Linkage Disequilibrium images for CXCL12 (up to first 250kb)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for CXCL12: --

QIAGEN SeqTarget long-range PCR primers for resequencing CXCL12

(in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, LSDB, HGMD, GAD, HuGE Navigator, and/or TGDB.)
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CXCL12 for disorders About GeneDecksing

OMIM: 600835 disorders: 609423

10/94 Novoseek disease relationships for CXCL12 gene (see all 94)

Disease	-log (P-Val)	Hits	PubMed IDs for Articles with Shared Sentences (# sentences)
whim syndrome	80.4	2	15781337 (1), 18556651 (1)
neovascularization	66.6	42	19595531 (3), 19215683 (3), 12628955 (2), 12680875 (1) (see all 24)
immunodeficiency	65.3	48	12232832 (2), 9108384 (1), 10413364 (1), 16306611 (1) (see all 43)
metastasis	62.8	252	18558091 (5), 18176915 (5), 20032431 (4), 18223219 (4) (see all 99)
tumors	51	295	19350687 (6), 17355795 (5), 16982747 (4), 18558091 (4) (see all 99)
hiv infections	49.5	39	20104779 (3), 12215924 (2), 9108384 (1), 10413364 (1) (see all 27)
cancer	47.6	125	20032431 (4), 14749473 (4), 15854291 (3), 19825996 (2) (see all 81)
inflammation	42.1	34	11095335 (3), 18383856 (2), 12444153 (1), 15339043 (1) (see all 28)
myeloma	37.6	22	16278822 (4), 15023543 (3), 11154207 (3), 14688392 (2) (see all 11)
hypogammaglobulinemia	37.1	1	18556651 (1)

About this table

Human Gene Mutation Database (HGMD): CXCL12
Genetic Association Database (GAD): CXCL12
Human Genome Epidemiology (HuGE) Navigator: CXCL12 (138 documents)

Export disorders and mutations for CXCL12 gene to outside databases

(Possibly Related Articles in Doctor's Guide)
About This Section

ACS: Possible Mechanism for Cancer Metastasis to the Liver Identified

(in PubMed. Associations of this gene to articles via ¹Entrez Gene, ²UniProtKB/Swiss-Prot, ³HGNC, ⁴GAD, ⁵PharmGKB, ⁶UniProtKB/TrEMBL, and/or ⁷Novoseek)
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10/1428 PubMed articles for CXCL12 gene, integrated from 7 sources (see all 1428):
(articles sorted by number of sources associating them with CXCL12)

Structure and chromosomal localization of the human stromal cell- derived factor 1 (SDF1) gene. (PubMed id 7490086)^{1, 2, 3, 7} Shirozu M....Honjo T. (1995)
Role of CCR5, CCR2 and SDF-1 gene polymorphisms in a population of HIV-1 infected individuals. (PubMed id 11693435)^{1, 4, 7} Mazzucchelli R....Balotta C. (2001)
Solution structure and basis for functional activity of stromal cell- derived factor-1; dissociation of CXCR4 activation from binding and inhibition of HIV-1. (PubMed id 9384579)^{1, 2, 7} Crump M.P....Clark-Lewis I. (1997)
Stromal cell-derived factor-1 (SDF-1) gene and susceptibility of Iranian patients with lung cancer. (PubMed id 15955592)^{1, 4, 7} Razmkhah M....Ghaderi A. (2005)
Haplotype analysis of the SDF-1 (CXCL12) gene in a longitudinal HIV-1/AIDS cohort study. (PubMed id 16177829)^{1, 4, 7} Modi W.S....Winkler C. (2005)
Risk for HIV-1 infection associated with a common CXCL12 (SDF1) polymorphism and CXCR4 variation in an African population. (PubMed id 16284526)^{1, 4, 7} Petersen D.C....Hayes V.M. (2005)
Differential processing of stromal-derived factor-1alpha and beta explains functional diversity. (PubMed id 14525775)^{1, 2, 7} De La Luz Sierra M.... Tosato G. (2004)
The impact of polymorphisms in chemokine and chemokine receptors on outcomes in liver transplantation. (PubMed id 12201365)^{1, 4, 7} Schroppel B....Murphy B. (2002)
Associations of CCR5, CCR2, and stromal cell-derived factor 1 genotypes with human immunodeficiency virus disease progression in patients receiving nucleoside therapy. (PubMed id 11709782)^{1, 4, 7} Lathey J.L....Katzenstein D.A. (2001)
Distribution of HIV/AIDS protective SDF1, CCR5 and CCR2 gene variants within Cretan population. (PubMed id 16286055)^{1, 4, 7} Apostolakis S....Spandidos D.A. (2005)

(in PubMed, OMIM, and NCBI Bookshelf)
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		AND	OR
Aliases
Disorders
Free Text

Query String		PubMed OMIM NCBI Bookshelf
	(Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 6387	HGNC: 10672	AceView: CXCL12	Ensembl:ENSG00000107562	euGenes: HUgn6387
ECgene: CXCL12	Kegg: 6387	H-InvDB: CXCL12

(According to HUGE)
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(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

Name	Description
ATLAS Chromosomes in Cancer entry for CXCL12	Genetics and Cytogenetics in Oncology and Haematology
Wikipedia	http://en.wikipedia.org/wiki/SDF-1_%28biology%29
SeattleSNPs	http://pga.gs.washington.edu/data/cxcl12/

Intellectual Property for CXCL12 gene
(Patent information from GeneIP, Licensable technologies from WIS Yeda, Salk, Tufts, IP news from XenneX, Inc.)

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Patent Information for CXCL12 gene:
Search GeneIP for patents involving CXCL12

Licensable Technologies for CXCL12 gene:

Weizmann Institute:

Enrichment of Repopulating Stem Cells For Clinical Protocols

GeneCards and IP:
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(Antibodies, recombinant proteins, and assays by Millipore, Sigma-Aldrich, R&D Systems, Qiagen, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Epitomics, ProSpec, Uscn,
Clones available from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, PCR Arrays from SABiosciences, Drugs and/or compounds by Sigma-Aldrich, Tocris Bioscience, and/or Enzo Life Sciences)
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	Phosphatase Activity Assays/Reagents		Recombinant/Natural Proteins for CXCL12 (CXCL12/SDF-1)

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Antibodies & Assays for CXCL12 (SDF-1)

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Recombinant Protein for CXCL12

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CXCL12 Gene

protein-coding GIFtS: 60

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CXCL12 (Gene Symbol)
chemokine (C-X-C motif) ligand 12
PBSF
SDF1
TPAR1
SCYB12
stromal cell-derived factor 1
Pre-B cell growth-stimulating factor
Intercrine reduced in hepatomas
SDF1A
IRH
SDF1B
TLSF-b
SDF-1b
TLSF-a
SDF-1a
TLSF
hSDF-1
SDF-1
hIRH
C-X-C motif chemokine 12

Wiskott-Aldrich Syndrome
Leukemia B-Cell
Dementia
MACULAR EDEMA
nonmetastatic
Myelofibrosis
sepsis
aggressiveness
COLON CARCINOMA
Atherosclerosis
Ischemia
Breast Cancer
Neovascularization
primary tumor
AIDS
Adenocarcinoma
Asthma
cell damage
Cancer
Lymphoma
Pathological Processes
RENAL DISEASE
Ovarian Cancer
cervical adenocarcinoma
effusion
Osteolysis
Bronchoalveolar Lavage Fluid
Colorectal Cancer
Multiple Sclerosis
HNSCC
Inflammation
Tuberculosis
Monocytic leukemia
immunodeficiency
Oral Cancer
Hepatitis
Neutropenia
MYELOMA
ENDOMETRIAL CARCINOMA
Rheumatoid Arthritis
prostate cancer
Tumors
Cardiovascular Diseases
Metastasis
Necrosis
Lymphoblastic Leukemia Acute
Glioblastoma
breast cancer metastatic
Warts
virus infection
Hepatitis C
FIBROSIS IDIOPATHIC PULMONARY
Hypogammaglobulinemia
Glioblastoma Multiforme
Thrombocytosis
BREAST CARCINOMA
Autoimmune Diseases
Brain Tumors
Tuberculosis Pulmonary
Neurological Disorders
Pulmonary Fibrosis
Leukemia Lymphocytic Chronic
Glioma
atherosclerotic plaque
Osteoarthritis
ACUTE LEUKEMIA
Leukemia
epithelial tumor
Alzheimers Disease
Severe Combined Immunodeficiency
Osteosarcoma
neurodegeneration
Diabetic Retinopathy
HEPATOCELLULAR CARCINOMA
THYROID PAPILLARY CARCINOMA
Pancreatic Cancer
Hematologic Malignancies
Myocardial Infarction
Proliferative diabetic retinopathy
HIV Infections
Ascites
NASOPHARYNGEAL CARCINOMA
Lymphocytic Leukemia Chronic B-Cell
solid tumor
Carcinoma Squamous Cell
AIDS Dementia Complex
STROKE
residual disease
Graft-Versus-Host Disease
Lymphoma Non-Hodgkins
BONE DESTRUCTION
Neuropathology
LEUKAEMIA LYMPHOCYTIC
WHIM SYNDROME

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CXCL12 Gene

protein-coding GIFtS: 60

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