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IFNA6 Gene

protein-coding GIFtS: 49

GC09M021340

interferon, alpha 6
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database

		Products

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

Aliases & Descriptions
interferon, alpha 6¹ ²		LeIF K² ³
IFN-alphaK¹ ²		IFN-alpha-6² ³
Interferon alpha-54² ³		interferon alpha-6²
Interferon alpha-K² ³

External Ids:	HGNC: 5427¹	Entrez Gene: 3443²	Ensembl: ENSG00000120235⁷	UniProtKB: P05013³

Export aliases for IFNA6 gene to outside databases

Previous GC identifers: GC09M021677 GC09M021551

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

UniProtKB/Swiss-Prot: IFNA6_HUMAN, P05013

Function: Produced by macrophages, IFN-alpha have antiviral activities. Interferon stimulates the production of two

enzymes: a protein kinase and an oligoadenylate synthetase

Gene Wiki entry for IFNA6

(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 IFNA6 gene promoter:
         NF-kappaB   NF-kappaB1   IRF-7A   Egr-3   Egr-2
         Other transcription factors

Search SABiosciences Chromatin IP Primers for IFNA6

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: 9p22 Ensembl cytogenetic band: 9p21.3 HGNC cytogenetic band: 9p22

IFNA6 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
IFNA6 gene location

GeneLoc gene densities for chromosome 9 GeneLoc Exon Structure

GeneLoc location for GC09M021340: view genomic region (about GC identifiers)

Start:	21,313,775 bp from pter
End:	21,314,344 bp from pter
Size:	570 bases
Orientation:	minus strand

1 alternative location:

Chr9- 21,349,834-21,351,377

RefSeq DNA sequence:

NC_000009.11 NT_008413.18

(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: IFNA6_HUMAN, P05013 (See protein sequence)

Recommended Name: Interferon alpha-6 precursor

Size: 189 amino acids; 22141 Da

Subcellular location: Secreted

Secondary accessions: Q5VYQ1

Explore the universe of human proteins at neXtProt for IFNA6: NX_P05013

REFSEQ proteins: NP_066282.1

ENSEMBL proteins:

ENSP00000369558

Human Recombinant Proteins

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

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005575	cellular_component	ND	--
GO:0005576	extracellular region	IEA	--
GO:0005615	extracellular space	IEA	--

About this table

IFNA6 for ontologies About GeneDecksing

Antibodies for IFNA6:

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Assays for IFNA6:

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	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

IFNA6 for domains About GeneDecksing

4 InterPro domains/families:

IPR009079 4_helix_cytokine-like_core

IPR012351 4_helix_cytokine_core

IPR015589 Interferon_alpha

IPR000471 Interferon_alpha/beta/delta

Graphical View of Domain Structure for InterPro Entry P05013

ProtoNet protein and cluster: P05013

1 Blocks protein family: IPB000471 Interferon alpha

UniProtKB/Swiss-Prot: IFNA6_HUMAN, P05013

Similarity: Belongs to the alpha/beta interferon 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: IFNA6_HUMAN, P05013

Function: Produced by macrophages, IFN-alpha have antiviral activities. Interferon stimulates the production of two

enzymes: a protein kinase and an oligoadenylate synthetase

Inhib. RNA:		Browse for Gene Knock-down Tools from Millipore
		Browse Nano Scale siRNA at Sigma-Aldrich Sigma-Aldrich siRNA Panels and esiRNA and siRNA for IFNA6 Sigma-Aldrich shRNA Panels and shRNA for IFNA6
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miRNA:		Browse microRNA Mimics at Sigma-Aldrich Browse microRNA target validation systems at Sigma-Aldrich
		QIAGEN Custom miScript Target Protector blocks miRNA-binding site of IFNA6
		Search SABiosciences for Assays for microRNAs that regulate IFNA6

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: IFNA6 OriGene Myc/DDK tagged cDNA clones in CMV expression vector: IFNA6 OriGene untagged cDNA clones in CMV expression vector: IFNA6 Browse 3'-UTR reporter clones for miRNA target validation Browse MicroRNA Expression Plasmids
		GenScript Custom cDNA clone Services for IFNA6
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Cell
Lines:

GenScript Custom overexpressing Cell Line Services for IFNA6

Genatlas biochemistry entry for IFNA6:

interferon type I,alpha 6,leukocyte

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

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005125	cytokine activity	IEA	--
GO:0005126	cytokine receptor binding	NAS	--

About this table

IFNA6 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

IFNA6 for pathways About GeneDecksing

2 Millipore Pathways for IFNA6

	Immune response IFN alpha/beta signaling pathway
	Immune response Role of TLRs 3 and 4 in cell antiviral response- TICAM1-specific signaling pathways

5/10 Sigma-Aldrich "Your Favorite Gene" (powered by Ingenuity) Pathways for IFNA6 (see all 10)

	IL-12 Signaling and Production in Macrophages
	Role of Lipids/Lipid Rafts in the Pathogenesis of Influenza
	Systemic Lupus Erythematosus Signaling
	Role of Cytokines in Mediating Communication between Immune Cells
	Role of RIG1-like Receptors in Antiviral Innate Immunity

5/9 Kegg Pathways (Kegg details for IFNA6) (see all 9):

	hsa04060 Cytokine-cytokine receptor interaction
	hsa04140 Regulation of autophagy
	hsa04620 Toll-like receptor signaling pathway
	hsa04622 RIG-I-like receptor signaling pathway
	hsa04623 Cytosolic DNA-sensing pathway

SABiosciences Pathway-Focused PCR Array including IFNA6: PAHS-064A

Sigma-Aldrich "Your Favorite Gene" (powered by Ingenuity) Molecular Interaction Network for IFNA6

Search SABiosciences Gene Network Central^TM Interacting Genes and Proteins Networks for IFNA6

2 Gene Ontology (GO) biological process terms (GO ID links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0006952	defense response	IEA	--
GO:0009615	response to virus	NAS	--

About this table

IFNA6 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 IFNA6

(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 Panels and esiRNA and siRNA for IFNA6 Sigma-Aldrich shRNA Panels and shRNA for IFNA6
		OriGene 29mer shRNA kits in GFP-retroviral vector: IFNA6 OriGene shRNA RFP: IFNA6 OriGene basic RS shRNA: IFNA6 OriGene siRNA: IFNA6
		QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of IFNA6

miRNA:		Browse microRNA Mimics at Sigma-Aldrich Browse microRNA target validation systems at Sigma-Aldrich
		QIAGEN Custom miScript Target Protector blocks miRNA-binding site of IFNA6
		Search SABiosciences for Assays for microRNAs that regulate IFNA6

Clones:		Browse FLAG tag genes at Sigma-Aldrich
		OriGene GFP tagged cDNA clones in CMV expression vector: IFNA6 OriGene Myc/DDK tagged cDNA clones in CMV expression vector: IFNA6 OriGene untagged cDNA clones in CMV expression vector: IFNA6 Browse 3'-UTR reporter clones for miRNA target validation Browse OriGene MicroRNA Expression Plasmids
		GenScript Custom cDNA clone Services for IFNA6

Primers:		OriGene genome-wide validated SYBR primer pairs: IFNA6 Browse OriGene validated miRNA SYBR primer pairs
		SABiosciences RT² qPCR Primer Assay for IFNA6: PPH01069A

REFSEQ mRNAs for IFNA6 gene:

NM_021002.2

Additional cDNA sequence:

BC069471.1 BC096697.1 BC096710.1 BC096730.1 BC098357.1

1 DOTS entry:

DT.91811057

6 AceView cDNA sequences:

BC074956 V00542 NM_002172 CR541921 NM_021002 BC069471

highest scoring ESTs for IFNA6:

BC069471 BC096697 BC096710 BC096730 BC098357 NM_021002 X02958

Unigene Cluster for IFNA6:

Interferon, alpha 6

Hs.533470

Unigene Representative Sequence: BC069471

GeneLoc Exon Structure

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

ENST00000380210(uc011lni.1)

(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

IFNA6 expression in normal and diseased human tissues

¹ / ² / ³

3 probe-sets matching IFNA6 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
1541_f_at²^{, 3}	U95-A	9	0.62	0.65	1.00	1.00	X02958	0.20	1.00	0.72	1
208548_at²^{, 3}	U133-A	1	0.82	1.00	--	--	NM_021002	0.60	1.00	0.82	1
208548_at²	U133Plus2	1	0.82	1.00	--	--	--	--	--	--	--

About this table

IFNA6 for expression About GeneDecksing

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

IFNA6 gene electronic northern expression

About these images

CGAP SAGE TAG: AGATCCTTCT

SOURCE GeneReport for Unigene cluster: Hs.533470

Primers:		OriGene genome-wide validated SYBR primer pairs: IFNA6 Browse OriGene validated miRNA SYBR primer pairs
		SABiosciences RT² qPCR Primer Assay for IFNA6: PPH01069A

SABiosciences Expression via Pathway-Focused PCR Array including IFNA6: PAHS-064A

(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 IFNA6 gene from 1 species

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
chimpanzee (Pan troglodytes)	IFNA6¹	--	interferon, alpha 6	98.94(n) 98.94(a)	473196 XM_528566.2 XP_528566.1

About this table Species with no ortholog for IFNA6

ENSEMBL Gene Tree for IFNA6 (if available)

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

Paralogs for IFNA6 gene

IFNA1² IFNA21² IFNA2² IFNA7² IFNA17² IFNA4² IFNA14² IFNA13²

IFNA16² IFNA10² IFNA8² IFNA5²

IFNA6 for paralogs About GeneDecksing

(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 9 pos	Sequence	Recs	AA Chg	Type	More	Recs	Allele freq	Pop	Total sample	More
Genomic Data				Transcription Related Data				Allele Frequencies
			--	--	--		--	--
rs2988573^1,2	C,A,H,	21350620(+)	`AAGAGG/ATTGAA`	2	/N	syn¹ ref¹ ese³		3		EA NA WA	1502
rs61736254^1,2	--	21350741(+)	`AGAAAA/GGAGAG`	2	P L	mis¹ ref¹		0	--	--	--	--
rs61736255^1,2	--	21350731(+)	`TTCAGA/GCAGGA`	2	C	syn¹ ref¹		0	--	--	--	--
rs61736257^1,2	--	21350701(+)	`TCCTGA/GGGAAA`	2	P	ref¹ syn¹		0	--	--	--	--
rs61736258^1,2		21350487(+)	`CATCAA/GGGGAG`	2	L	ref¹ syn¹		0	--	--	--	--
rs76096785^1,2		21350603(+)	`ATGAGC/TCCTTT`	2	D G	ref¹ mis¹		0	--	--	--	--
rs112773436^1,2	--	21350634(+)	`CTGCTA/GAATCA`	2	Q X	ref¹ ¹		0	--	--	--	--
rs114283047^1,2		21350803(+)	`TGGGTC/TTGAGG`	2	Q	syn¹ ref¹		0	--	--	--	--

About this table

HapMap Linkage Disequilibrium images for IFNA6 (up to first 250kb)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for IFNA6: --

QIAGEN SeqTarget long-range PCR primers for resequencing IFNA6

(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

IFNA6 for disorders About GeneDecksing

OMIM: 147566

Human Genome Epidemiology (HuGE) Navigator: IFNA6 (6 documents)

Export disorders and mutations for IFNA6 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

10/17 PubMed articles for IFNA6 gene, integrated from 7 sources (see all 17):
(articles sorted by number of sources associating them with IFNA6)

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)
Signal peptide prediction based on analysis of experimentally verified cleavage sites. (PubMed id 15340161)^{1, 2} Zhang Z. and Henzel W.J. (2004)
Mapping of the shortest region of overlap of deletions of the short arm of chromosome 9 associated with human neoplasia. (PubMed id 1385305)^{1, 3} Olopade O.I....Diaz M.O. (1992)
Structural relationship of human interferon alpha genes and pseudogenes. (PubMed id 4057246)^{1, 2} Henco K.... Weissmann C. (1985)
New genetic associations detected in a host response study to hepatitis B vaccine. (PubMed id 20237496)¹ Davila S....Seielstad M. (2010)
Large-scale candidate gene analysis of spontaneous cl earance of hepatitis C virus. (PubMed id 20331378)¹ Mosbruger T.L....Thio C.L. (2010)
Dengue hemorrhagic fever is associated with polymorph isms in JAK1. (PubMed id 20588308)¹ Silva L.K....Teixeira M.G. (2010)
Associations of 9p21 variants with cutaneous malignan t melanoma, nevi, and pigmentation phenotypes in melanoma-prone families with a nd without CDKN2A mutations. (PubMed id 20574843)¹ Yang X.R....Goldstein A.M. (2010)
Interleukin-9 polymorphism in infants with respirator y syncytial virus infection: an opposite effect in boys and girls. (PubMed id 20503287)¹ Schuurhof A....Janssen R. (2010)
Genetic susceptibility to respiratory syncytial virus bronchiolitis in preterm children is associated with airway remodeling genes and innate immune genes. (PubMed id 19258923)¹ Siezen C.L....Janssen R. (2009)

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

		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: 3443	HGNC: 5427	AceView: IFNA14	Ensembl:ENSG00000120235	euGenes: HUgn3443
ECgene: IFNA6	Kegg: 3443	H-InvDB: IFNA6

(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 IFNA6 gene
(Patent information from GeneIP, Licensable technologies from WIS Yeda, Salk, Tufts, IP news from XenneX, Inc.)

About This Section

Patent Information for IFNA6 gene:
Search GeneIP for patents involving IFNA6

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)
About This Section

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	QIAGEN Custom miScript Target Protector blocks miRNA-binding site of IFNA6
	SeqTarget long-range PCR primers for resequencing IFNA6
	QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays
	QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of IFNA6

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IFNA6 Gene

protein-coding GIFtS: 49

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IFNA6 Gene

protein-coding GIFtS: 49

Aliases & Descriptionsfor IFNA6 gene

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Genomic Viewsfor IFNA6 gene

Proteinsfor IFNA6 gene

Protein Domains/Familiesfor IFNA6 gene

Gene Functionfor IFNA6 gene

Pathways & Interactionsfor IFNA6 gene

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Transcriptsfor IFNA6 gene

Expression for IFNA6 gene

Orthologsfor IFNA6 gene

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Aliases &
Descriptions
for IFNA6 gene

Summaries
for IFNA6 gene

Genomic Views
for IFNA6 gene

Proteins
for IFNA6 gene

Protein Domains/
Families
for IFNA6 gene

Gene Function
for IFNA6 gene

Pathways & Interactions
for IFNA6 gene

Drugs & Compounds
for IFNA6 gene

Transcripts
for IFNA6 gene

Expression
for IFNA6 gene

Orthologs
for IFNA6 gene

Paralogs
for IFNA6 gene

Genomic Variants
for IFNA6 gene

Disorders & Mutations
for IFNA6 gene

Medical News
for IFNA6 gene

Publications
for IFNA6 gene

Intellectual Property
for IFNA6 gene

Products
for IFNA6 gene