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CXorf1 Gene

protein-coding GIFtS: 40

GC0XP133874

chromosome X open reading frame 1
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database

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

Aliases & Descriptions
chromosome X open reading frame 1¹ ²
MGC142164²
hypothetical protein LOC9142²
MGC142160²

External Ids:	HGNC: 2562¹	Entrez Gene: 9142²	Ensembl: ENSG00000221870⁷	UniProtKB: O96002³

Export aliases for CXorf1 gene to outside databases

Previous GC identifers: GC0XP139452 GC0XP141730 GC0XP142766 GC0XP143576 GC0XP144614 GC0XP144716 GC0XP144908

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

Entrez Gene summary for CXorf1:

This intronless gene is expressed in the hippocampus and maps close to a candidate region for several X-linked mental

retardation (XLMR) syndromes. It is conserved in primates, cow, and horse, but not found in mouse and rat. The exact

function of this gene is not known, but on the basis of its physical location and expression pattern, it is proposed

to have an important function in the brain. (provided by RefSeq)

(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 CXorf1 gene promoter:
         ATF-2   c-Jun   deltaCREB   CREB   MRF-2   NF-E2 p45   NF-E2   Meis-1   HOXA9B   FOXI1
         Other transcription factors

Search SABiosciences Chromatin IP Primers for CXorf1

Epigenetics:

QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays

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

Entrez Gene cytogenetic band: Xq27.3 Ensembl cytogenetic band: Xq27.3 HGNC cytogenetic band: Xq27.3

CXorf1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CXorf1 gene location

GeneLoc gene densities for chromosome X GeneLoc Exon Structure

GeneLoc location for GC0XP133874: view genomic region (about GC identifiers)

Start:	133,874,579 bp from pter
End:	133,877,025 bp from pter
Size:	2,447 bases
Orientation:	plus strand

1 alternative location:

ChrX+ 144,908,928-144,911,368

RefSeq DNA sequence:

NC_000023.10 NT_011681.16

(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)
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UniProtKB/Swiss-Prot: CX001_HUMAN, O96002 (See protein sequence)

Recommended Name: Uncharacterized protein CXorf1

Size: 111 amino acids; 13452 Da

Secondary accessions: Q14CW0

Explore the universe of human proteins at neXtProt for CXorf1: NX_O96002

REFSEQ proteins: NP_004700.1

ENSEMBL proteins:

ENSP00000386149

Human Recombinant Proteins

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1 Gene Ontology (GO) cellular component term (GO ID links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005575	cellular_component	ND	--

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CXorf1 for ontologies About GeneDecksing

Antibodies for CXorf1:

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	Uscn ELISAs and CLIAs for CXorf1

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

ProtoNet protein and cluster: O96002

(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

Inhib. RNA:		Browse for Gene Knock-down Tools from Millipore
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miRNA:		Sigma-Aldrich microRNA Mimics for CXorf1 Browse microRNA target validation systems at Sigma-Aldrich
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		8/11 SABiosciences Assays for microRNAs that regulate CXorf1 (see all 11):
		hsa-miR-498 hsa-miR-579 hsa-miR-557 hsa-miR-944 hsa-miR-124 hsa-miR-144 hsa-miR-513b hsa-miR-506

Gene
Editing:

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Cell
Lines:

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Genatlas biochemistry entry for CXorf1:

chromosome X open reading frame 1,expressed in the brain,granula cells layer of the dentate gyrus and Ammon's horn,also

expressed in melanoma cell line

1 Gene Ontology (GO) molecular function term (GO ID links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0003674	molecular_function	ND	--

About this table

CXorf1 for ontologies 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

SABiosciences Custom Pathway-Focused PCR Arrays for CXorf1

Search SABiosciences Gene Network Central^TM Interacting Genes and Proteins Networks for CXorf1

1 Gene Ontology (GO) biological process term (GO ID links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0008150	biological_process	ND	--

About this table

CXorf1 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

Browse Small Molecules at Sigma-Aldrich

Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for CXorf1

(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 siRNA for CXorf1 Sigma-Aldrich shRNA for CXorf1
		OriGene 29mer shRNA kits in GFP-retroviral vector: CXorf1 OriGene shRNA RFP: CXorf1 OriGene basic RS shRNA: CXorf1 OriGene siRNA: CXorf1
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miRNA:		Sigma-Aldrich microRNA Mimics for CXorf1 Browse microRNA target validation systems at Sigma-Aldrich
		QIAGEN Custom miScript Target Protector blocks miRNA-binding site of CXorf1
		8/11 SABiosciences Assays for microRNAs that regulate CXorf1 (see all 11):
		hsa-miR-498 hsa-miR-579 hsa-miR-557 hsa-miR-944 hsa-miR-124 hsa-miR-144 hsa-miR-513b hsa-miR-506

Clones:		Browse FLAG tag genes at Sigma-Aldrich
		OriGene GFP tagged cDNA clones in CMV expression vector: CXorf1 OriGene Myc/DDK tagged cDNA clones in CMV expression vector: CXorf1 OriGene untagged cDNA clones in CMV expression vector: CXorf1 OriGene 3'-UTR Clone: CXorf1 Browse OriGene MicroRNA Expression Plasmids
		GenScript cDNA clone with any tag delivered in your preferred vector: CXorf1

Primers:		OriGene genome-wide validated SYBR primer pairs: CXorf1 Browse OriGene validated miRNA SYBR primer pairs
		SABiosciences RT² qPCR Primer Assay for CXorf1: PPH11038A

REFSEQ mRNAs for CXorf1 gene:

NM_004709.2

Additional cDNA sequence:

AF007148.1 BC113600.1 BC113604.1 Y08902.1

1 DOTS entry:

DT.410617

15 AceView cDNA sequences:

AF007148 Y08902 AL134413 NM_004709 Z41623 N54868 BM682305 CK299331

BE671225 BM723298 AA625425 BQ189156 T77107 R38176 BE703538

highest scoring ESTs for CXorf1:

Y08902 AA625425 AL134413 BE671225 BE703538 N54868 R38176 T77107 Z41623 AF007148

Unigene Cluster for CXorf1:

Chromosome X open reading frame 1

Hs.106688 [show with all ESTs]

Unigene Representative Sequence: NM_004709

GeneLoc Exon Structure

1 Ensembl transcript including schematic representation, and UCSC links where relevant:

ENST00000408967(uc004fch.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

CXorf1 expression in normal and diseased human tissues

¹ / ² / ³

3 probe-sets matching CXorf1 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
34444_at²^{, 3}	U95-A	1	0.44	1.00	1.00	1.00	Y08902	1.00	1.00	1.00	1
206711_at²^{, 3}	U133-A	1	0.82	1.00	--	--	NM_004709	0.60	1.00	0.82	1
206711_at²	U133Plus2	1	0.82	1.00	--	--	--	--	--	--	--

About this table

CXorf1 for expression About GeneDecksing

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

CXorf1 gene electronic northern expression

About these images

CGAP SAGE TAG: --

SOURCE GeneReport for Unigene cluster: Hs.106688

Expression variation in blood from EXPOLDB for CXorf1

UniProtKB/Swiss-Prot: CX001_HUMAN, O96002

Tissue specificity: Brain. In the hippocampus it is mainly localized in the granular-cell layer of the dentate gyrus

and in the CA2-CA3 subfields of Ammon's horn

Primers:		OriGene genome-wide validated SYBR primer pairs: CXorf1 Browse OriGene validated miRNA SYBR primer pairs
		SABiosciences RT² qPCR Primer Assay for CXorf1: PPH11038A

SABiosciences Custom PCR Arrays for CXorf1

(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

ENSEMBL Gene Tree for CXorf1 (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 X pos	Sequence	Recs	AA Chg	Type	More	Recs	Allele freq	Pop	Total sample	More
Genomic Data				Transcription Related Data				Allele Frequencies
			--	--	--		--	--
rs2474402^1,2	C,F,A,H,	144910936(+)	`GTTTGT/CTGGTG`	1	--	ut3¹		8		NS EA NA WA	301
rs2748590^1,2	C,F,A,H	144910113(+)	`CACCCC/GCTACT`	1	--	ut3¹		4		NS EA	412
rs3048401^1,2	--	144911519(+)	`AACAA-/TGAA CACTT`	1	--	ng3¹		0	--	--	--	--
rs3752359^1,2	C,F	144909301(+)	`TAGCAT/GCCCCA`	2	/A /S	mis¹ ref¹		8		NS EA	720
rs4306044^1,2	C,F,A,H,	144911840(+)	`CACCAA/GAGCCA`	1	--	ng3¹		18		NS EA NA WA	1063
rs5904152^1,2	--	144911517(+)	`CTAAC-/AATG AACAC`	1	--	ng3¹		0	--	--	--	--
rs5919909^1,2	C,F,A,	144910142(+)	`AAGGAG/ACTTCG`	1	--	ut3¹		7		NS EA NA WA	418
rs6525632^1,2	C,A,H	144908513(+)	`AACATG/ATCTTT`	1	--	ng5¹		1		NA	2
rs12392798^1,2	--	144910968(+)	`GTCTTC/TTGAAG`	1	--	ut3¹		0	--	--	--	--
rs12855468^1,2	C	144909272(+)	`CATAAA/CCATTT`	2	N T	ref¹ mis¹		4		NS EA	404

About this table

HapMap Linkage Disequilibrium images for CXorf1 (up to first 250kb)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for CXorf1: --

QIAGEN SeqTarget long-range PCR primers for resequencing CXorf1

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

CXorf1 for disorders About GeneDecksing

OMIM: 300565

Locus Specific Mutation Databases (LSDB): CXorf1

Export disorders and mutations for CXorf1 gene to outside databases

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

(in PubMed. Associations of this gene to articles via ¹Entrez Gene, ²UniProtKB/Swiss-Prot, ³HGNC, ⁴GAD, ⁵PharmGKB, ⁶UniProtKB/TrEMBL, and/or ⁷Novoseek)
About This Section

6 PubMed articles for CXorf1 gene integrated from 7 sources:
(articles sorted by number of sources associating them with CXorf1)

Identification of CXorf1, a novel intronless gene in Xq27.3 expressed in human hippocampus. (PubMed id 9881668)^{1, 2, 3, 7} Redolfi E.... Zucchi I. (1998)
The DNA sequence of the human X chromosome. (PubMed id 15772651)^{1, 2} Ross M.T.... Bentley D.R. (2005)
The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)^{1, 2} Gerhard D.S....Malek J. (2004)
Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)¹ Strausberg R.L....Marra M.A. (2002)
Large-scale concatenation cDNA sequencing. (PubMed id 9110174)¹ Yu W.... Gibbs R.A. (1997)
A "double adaptor" method for improved shotgun library construction. (PubMed id 8619474)¹ Andersson B.... Gibbs R.A. (1996)

(in PubMed, OMIM, and NCBI Bookshelf)
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		AND	OR
Aliases
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)
About This Section

Entrez Gene: 9142	HGNC: 2562	AceView: CXorf1	Ensembl:ENSG00000221870	euGenes: HUgn9142
ECgene: CXorf1	H-InvDB: CXorf1

(According to HUGE)
About This Section

(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

Intellectual Property for CXorf1 gene
(Patent information from GeneIP, Licensable technologies from WIS Yeda, Salk, Tufts, IP news from XenneX, Inc.)

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Patent Information for CXorf1 gene:
Search GeneIP for patents involving CXorf1

GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search

(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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CXorf1 Gene

protein-coding GIFtS: 40

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CXorf1 Gene

protein-coding GIFtS: 40

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