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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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OriGene Protein Over-expression Lysate: IFNA6
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3 Gene Ontology (GO) cellular component terms (GO ID links to tree view):

GO IDQualified GO termEvidencePubMed 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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Epitomics antibodies for IFNA6

Assays for IFNA6: 
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Browse R&D Systems for biochemical assays
GenScript Custom Assay Services for IFNA6 
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
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Sigma-Aldrich siRNA Panels and esiRNA and siRNA for IFNA6
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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

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 
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Browse Sino Biological Human cDNA Clones

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 IDQualified GO termEvidencePubMed 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 CentralTM Interacting Genes and Proteins Networks for IFNA6

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

GO IDQualified GO termEvidencePubMed 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  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
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 expression
IFNA6 gene electronic northern expression
IFNA6 gene sage 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

8 NCBI SNPs in IFNA6 are shown
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidChr 9 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
----------
rs29885731,2
C,A,H,21350620(+) AAGAGG/ATTGAA 2 /N syn1 ref1 ese33Minor allele frequency- A:0.28EA NA WA 1502
rs617362541,2
--21350741(+) AGAAAA/GGAGAG 2 P L mis1 ref10--------
rs617362551,2
--21350731(+) TTCAGA/GCAGGA 2 C syn1 ref10--------
rs617362571,2
--21350701(+) TCCTGA/GGGAAA 2 P ref1 syn10--------
rs617362581,2
21350487(+) CATCAA/GGGGAG 2 L ref1 syn10--------
rs760967851,2
21350603(+) ATGAGC/TCCTTT 2 D G ref1 mis10--------
rs1127734361,2
--21350634(+) CTGCTA/GAATCA 2 Q X ref1 10--------
rs1142830471,2
21350803(+) TGGGTC/TTGAGG 2 Q syn1 ref10--------
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)
  1. 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)
  2. Signal peptide prediction based on analysis of experimentally verified cleavage sites. (PubMed id 15340161)1, 2 Zhang Z. and Henzel W.J. (2004)
  3. 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)
  4. Structural relationship of human interferon alpha genes and pseudogenes. (PubMed id 4057246)1, 2 Henco K.... Weissmann C. (1985)
  5. New genetic associations detected in a host response study to hepatitis B vaccine. (PubMed id 20237496)1 Davila S....Seielstad M. (2010)
  6. Large-scale candidate gene analysis of spontaneous cl earance of hepatitis C virus. (PubMed id 20331378)1 Mosbruger T.L....Thio C.L. (2010)
  7. Dengue hemorrhagic fever is associated with polymorph isms in JAK1. (PubMed id 20588308)1 Silva L.K....Teixeira M.G. (2010)
  8. 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)
  9. 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)
  10. 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
 ANDOR
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
  --

(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
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 QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of IFNA6
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