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IFNA13 Gene

protein-coding GIFtS: 56

GC09M021357

interferon, alpha 13
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc , and/or ⁷Ensembl, ⁸miRBase)
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Aliases
OTTHUMP00000021144 ^²

Descriptions
Interferon alpha-D ^³
LeIF D ^³
interferon, alpha 13 ^²

External Ids
HGNC: 5419¹
Entrez Gene: 3447²
UniProtKB: P01562³
Ensembl: ENSG00000120247⁷

Search outside databases for aliases for IFNA13 gene

Previous GC identifers: GC09M021695 GC09M021568

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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UniProtKB/Swiss-Prot: IFNA1_HUMAN, P01562

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

production of two enzymes: a protein kinase and an oligoadenylate synthetase

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:

UCSC Golden Path with GeneCards custom track

Transcription factor binding sites upstream to the IFNA13 gene

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

IFNA13 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 9 GeneLoc Exon Structure

GeneLoc location for GC09M021357: (about GC identifiers)

Start:	21,357,423 bp from pter
End:	21,358,961 bp from pter
Size:	1,539 bases
Orientation:	minus strand

RefSeq DNA sequence:

NC_000009.10 NT_008413.17

(According to ¹UniProtKB, and/or Ensembl, Phosphorylation sites according to ²Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: IFNA1_HUMAN, P01562 (See protein sequence)

Recommended Name: Interferon alpha-1/13 precursor

Size: 189 amino acids; 21725 Da

Subcellular location: Secreted

Miscellaneous: Interferons alpha-1 and alpha-13 have identical protein sequences

Secondary accessions: Q14605 Q2M1L8 Q52LB8 Q5VYQ2 Q7M4Q1 Q8WZ68 Q9UMJ3

Post-translational modifications:

View phosphorylation sites using PhosphoSite²

REFSEQ proteins: NP_008831.3

ENSEMBL proteins:

ENSP00000369556

Human Recombinant Proteins

	Browse Drug Discovery Central at Invitrogen for human recombinant proteins
	Browse Purified and Recombinant Proteins at Millipore
	Browse Human Recombinant Proteins at Sigma-Aldrich
	Browse R&D Systems for human recombinant proteins
	Browse recombinant and purified proteins available from Enzo Life Sciences
	Recombinant Proteins from Abcam (IFNA13)
	Human Recombinant Proteins from Abnova (IFNA13)

Browse Origene for full length recombinant human proteins expressed in human HEK293 cells

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

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

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Antibodies for IFNA13:

	Browse Antibodies Central at Invitrogen
	Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
	Browse Antibodies at Sigma-Aldrich
	Browse R&D Systems for Antibodies
	Antibodies from Abcam (IFNA13), each with their Abpromise^SM
	Monoclonal and Polyclonal Antibodies from Abnova (IFNA13)
	Novus Biologicals Antibodies for IFNA13

Assays for IFNA13:

	Browse Invitrogen for biochemical assays
	Browse Kits and Assays available from Millipore
	Browse R&D Systems for biochemical assays
	Browse biochemical assays available from Enzo Life Sciences

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

Graphical View of Domain Structure for InterPro Entry P01562

ProtoNet protein and cluster: P01562

1 Blocks protein family: IPB000471 Interferon alpha

UniProtKB/Swiss-Prot: IFNA1_HUMAN, P01562

Similarity: Belongs to the alpha/beta interferon family

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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Inhib. RNA:		Browse Invitrogen for RNAi
		Browse for Gene Knock-down Tools from Millipore
		Abnova Chimera RNAi Products for Gene knock-down (IFNA13)

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_006900

Applied Biosystems Silencer® siRNAs for IFNA13

Sigma-Aldrich siRNA for IFNA13

Sigma-Aldrich shRNA Panels and shRNA for IFNA13

Explore Sigma-Aldrich super-pooled esiRNAs

Clones:		Browse Clone Ranger at Invitrogen for clones
		Browse Clones for the Expression of Recombinant Proteins Available from Millipore

OriGene GFP tagged cDNA clone in CMV expression vector: NM_006900
Myc/DDK tagged cDNA clone in CMV expression vector: NM_006900
untagged cDNA clone in CMV expression vector: NM_006900

Primers:

Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers

OriGene genome-wide validated SYBR primer pairs: NM_006900

UniProtKB/Swiss-Prot: IFNA1_HUMAN, P01562

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

production of two enzymes: a protein kinase and an oligoadenylate synthetase

Genatlas biochemistry entry for IFNA13:

interferon type I,alpha 13,leukocyte

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

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005125	cytokine activity	IEA	--
GO:0005132	interferon-alpha/beta receptor binding	TAS	4057246

About this table

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to ¹UniProtKB, ²MINT, and/or ³STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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4 Sigma-Aldrich "Your Favorite Gene" Pathways for IFNA13 (Your Favorite Gene powered by Ingenuity)

Role of Cytokines in Mediating Communication between Immune Cells
Role of RIG1-like Receptors in Antiviral Innate Immunity
Activation of IRF by Cytosolic Pattern Recognition Receptors
IL-12 Signaling and Production in Macrophages

GeneDecks IFNA13 for the pathways selected above

About GeneDecksing

5/20 Interacting proteins for IFNA13 (ENSP00000369556³) via UniProtKB, MINT, and/or STRING (see all 20 )

Interactant		Interaction Details
GeneCard	External ID(s)	Interaction Details
IFNAR2	ENSP00000371676³	STRING (score=.929)
IFNG	ENSP00000229135³	STRING (score=.921)
IFNGR1	ENSP00000356713³	STRING (score=.876)
IFNGR2	ENSP00000371425³	STRING (score=.848)
PSME1	ENSP00000372155³	STRING (score=.823)

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

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

About this table

(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 drugs & compounds from Enzo Life Sciences

Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for IFNA13

(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
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 Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene)
About This Section

Inhib. RNA:		Browse Invitrogen for RNAi
		Browse for Gene Knock-down Tools from Millipore
		Abnova Chimera RNAi Products for Gene knock-down (IFNA13)

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_006900

Sigma-Aldrich siRNA for IFNA13

Sigma-Aldrich shRNA Panels and shRNA for IFNA13

Explore Sigma-Aldrich super-pooled esiRNAs

Applied Biosystems Silencer® siRNAs:

NM_006900

REFSEQ mRNAs for IFNA13 gene:

NM_006900.3

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_006900
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_006900
                                 untagged cDNA clone in CMV expression vector: NM_006900

Additional cDNA sequence:

BC069427.1 BC093988.1

1 DOTS entry:

DT.121155340

2 AceView cDNA sequences:

NM_006900 BC069427

highest scoring ESTs for IFNA13:

BC069427 BC093988 NM_006900 BC112002

Unigene Cluster for IFNA13:

Interferon, alpha 13

Hs.533471

Unigene Representative Sequence: NM_006900

GeneLoc Exon Structure

1 Ensembl transcript including schematic representation:

ENST00000380208

(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 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
About This Section

IFNA13 expression in normal and diseased human tissues

¹ / ² / ³

2 probe-sets matching IFNA13 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
208344_x_at²^{, 3}	U133-A	12	1.00	0.35	--	--	NM_006900	0.60	1.00	0.82	1
208344_x_at²	U133Plus2	12	1.00	0.35	--	--	--	--	--	--	--

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Data from

(Publications) and GNF BioGPS
About these images
About these images

CGAP SAGE TAG: AGATCCCTCT

SOURCE GeneReport for Unigene cluster: Hs.533471
Expression variation in blood from EXPOLDB for IFNA13

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD and/or ⁵MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section

Orthologs for IFNA13 gene from 3 species

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
chimpanzee (Pan troglodytes)	IFNA13¹	--	interferon, alpha 13	99.29(n) 98.94(a)	742651 XM_001152509.1 XP_001152509.1
rat (Rattus norvegicus)	Ifna5¹	--	interferon alpha family, gene 5	73.19(n) 58.73(a)	690894 XM_001076062.1 XP_001076062.1
mouse (Mus musculus)	Ifna6¹	--	interferon alpha 6	76.37(n) 64.02(a)	15969 NM_206871.1 NP_996754.1

About this table Species with no ortholog for IFNA13

ENSEMBL Gene Tree for IFNA13

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

Paralogs for IFNA13 gene

IFNA1¹ ² IFNA21² IFNA2² IFNA7² IFNA17² IFNA4² IFNA6² IFNA14²

IFNA10² IFNA16² IFNA8² IFNA5²

(According to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section

UniProtKB/Swiss-Prot: IFNA1_HUMAN, P01562

Polymorphism: Two forms exist; alpha-1a (shown here) and alpha-1b

10/23 NCBI SNPs in IFNA13 are shown (see all 23 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay) (see all 18)

AB	SNP ID	Valid	Chr 9 pos	Sequence	Recs	AA Chg	Type	More	Recs	Allele freq	Pop	Total sample	More
AB	Genomic Data				Transcription Data				Allele Frequencies
				--	--	--		--	--				--
	rs637949^1,2	A,C,F,H	21359315(-)	`TGAAGG/CCACCT`	1	--	ng3¹		8		EU EA WA	834
--	rs11999696^1,2	C,F,H	21357195(+)	`TAATGA/GATTGA`	1	--	ng5¹		4		EU EA WA	404
	rs643070^1,2	C,F,H	21358609(-)	`cataaG/Acattc`	1	--	ng3¹		7		EU EA WA NA	512
--	rs9333355^1,2	C,F,H	21359376(-)	`TTATGC/TGCATC`	1	--	ng3¹		9		NS EU EA WA	2248
--	rs4436208^1,2	H	21359030(+)	`TTTTAT/AACCTT`	1	--	ng3¹		4		EU EA WA	404
--	rs12003605^1,2	C	21357283(+)	`TAAATA/CTTATG`	1	--	ng5¹		0	--	--	--	--
	rs10156589^1,2	H	21358215(+)	`ctcaaC/Tcattt`	1	--	ng3¹		4		EU EA WA	416
--	rs9333361^1,2	F	21359358(-)	`AAGATA/CGTTTC`	1	--	ng3¹		1		NS	1332
--	rs2480926^1,2	H	21357351(-)	`TCACTT/CCTGCT`	1	--	ng5¹		4		EU EA WA	412
--	rs2480925^1,2	--	21358082(-)	`AGCAAA/GGCCTT`	1	--	ng3¹		0	--	--	--	--

About this table

HapMap Linkage Disequilibrium images for IFNA13 (up to first 250kb)

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

OMIM: 147578

Human Genome Epidemiology Navigator: IFNA13 (8 documents)

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

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

10/22 PubMed articles for IFNA13 gene (see all 22 ):

DNA sequence and analysis of human chromosome 9. (PubMed id 15164053)^{3, 4} Humphray S.J.... Dunham I. (2004)
The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)^{3, 4} Gerhard D.S....Malek J. (2004)
IFN-alpha-1a gene is the major variant in the North American population. (PubMed id 11032395)^{3, 4} Hussain M.... Liao M.-J. (2000)
Identification of nine interferon-alpha subtypes produced by Sendai virus-induced human peripheral blood leucocytes. (PubMed id 9425112)^{3, 4} Nyman T.A.... Kalkkinen N. (1998)
Mapping of the shortest region of overlap of deletions of the short arm of chromosome 9 associated with human neoplasia. (PubMed id 1385305)^{2, 3} Olopade O.I....Diaz M.O. (1992)
Structural relationship of human interferon alpha genes and pseudogenes. (PubMed id 4057246)^{3, 4} Henco K.... Weissmann C. (1985)
Two distinct families of human and bovine interferon-alpha genes are coordinately expressed and encode functional polypeptides. (PubMed id 2985969)^{3, 4} Capon D.J.... Goeddel D.V. (1985)
Two non-allelic human interferon alpha genes with identical coding regions. (PubMed id 6479148)^{3, 4} Todokoro K.... Weissmann C. (1984)
Formation of genes coding for hybrid proteins by recombination between related, cloned genes in E. coli. (PubMed id 6310510)^{3, 4} Weber H. and Weissmann C. (1983)
The structure of eight distinct cloned human leukocyte interferon cDNAs. (PubMed id 6163083)^{3, 4} Goeddel D.V.... Gray P.W. (1981)

(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, and/or H-InvDB)
About This Section

Entrez Gene: 3447	HGNC: 5419	AceView: IFNA13	Ensembl:ENSG00000120247	euGenes: HUgn3447
ECgene: IFNA13	H-InvDB: IFNA13

(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

Name	Description
ATLAS Chromosomes in Cancer entry for IFNA13	Genetics and Cytogenetics in Oncology and Haematology
NIEHS-SNPs	http://egp.gs.washington.edu/data/ifna1/

Licensable Technologies for IFNA13
(Available from WIS Yeda, Salk, Tufts)

About This Section

(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
About This Section

Products for IFNA13:

TaqMan ® Genotyping Assays

Free SNP selection tool

Invitrogen iPath Pathways	Invitrogen BLOCK-iT™ RNAi
Invitrogen Antibodies	Invitrogen Assays
Invitrogen Clones	Invitrogen Q-PCR Products
Invitrogen Human Recombinant Kinases	Invitrogen Custom Antibody and Peptide Service
Invitrogen Proteins / Assays / Screening Services	Search Invitrogen catalog for IFNA13-related products

	Millipore Custom Antibody & Bulk Services
	Millipore Preclinical / Clinical Development Services
	Millipore Immunoassay Services
	Millipore Target Screening & Profiling Services

	Predesigned and custom siRNAs for IFNA13		Browse antibodies at Sigma-Aldrich
	Explore super-pooled esiRNAs		Browse proteins at Sigma-Aldrich
	Lentivirus-delivered shRNAs for IFNA13		Browse small molecules at Sigma-Aldrich
	"Your Favorite Gene" Pathways		feedback

	Antibodies		Primer Pairs
	Cell Culture Products		ELISAs
	Flow Cytometry Kits		Protease Activity Assays & Reagents
	Cell Selection/Detection Kits & Reagents		ELISA/Assay Development Kits & Reagents
	Multiplex/Array Assay Kits & Reagents		ELISpot Kits & Development Modules
	Recombinant & Natural Proteins

	Recombinant Proteins (IFNA13)
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	Custom Service for Rabbit Pab from Full-length Protein

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Antibodies for IFNA13

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IFNA13 Gene

protein-coding GIFtS: 56

Aliases &
Descriptions
for IFNA13

Summaries
for IFNA13

Genomic Location
for IFNA13

Proteins
for IFNA13

Protein Domains/
Families
for IFNA13

Gene Function
for IFNA13

Pathways & Interactions
for IFNA13

Drugs & Compounds
for IFNA13

Transcripts
for IFNA13

Expression
for IFNA13

Orthologs
for IFNA13

Paralogs
for IFNA13

SNPs/Variants
for IFNA13

Disorders & Mutations
for IFNA13

Medical News
for IFNA13

Publications
for IFNA13

Search for IFNA13

Genome Databases showing IFNA13

Other Databases showing IFNA13

Specialized Databases showing IFNA13

Licensable Technologies
for IFNA13

Services
for IFNA13

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

IFNA13 Gene

protein-coding GIFtS: 56

Aliases & Descriptionsfor IFNA13

Summariesfor IFNA13

Genomic Locationfor IFNA13

Proteinsfor IFNA13

Protein Domains/Familiesfor IFNA13

Gene Functionfor IFNA13

Pathways & Interactionsfor IFNA13

Drugs & Compoundsfor IFNA13

Transcriptsfor IFNA13

Expression for IFNA13

Orthologsfor IFNA13

Paralogsfor IFNA13

SNPs/Variantsfor IFNA13

Disorders & Mutationsfor IFNA13

Medical Newsfor IFNA13

Publicationsfor IFNA13

Search for IFNA13

Genome Databases showing IFNA13

Other Databases showing IFNA13

Specialized Databases showing IFNA13

Licensable Technologiesfor IFNA13

Servicesfor IFNA13

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

Aliases &
Descriptions
for IFNA13

Summaries
for IFNA13

Genomic Location
for IFNA13

Proteins
for IFNA13

Protein Domains/
Families
for IFNA13

Gene Function
for IFNA13

Pathways & Interactions
for IFNA13

Drugs & Compounds
for IFNA13

Transcripts
for IFNA13

Expression
for IFNA13

Orthologs
for IFNA13

Paralogs
for IFNA13

SNPs/Variants
for IFNA13

Disorders & Mutations
for IFNA13

Medical News
for IFNA13

Publications
for IFNA13

Licensable Technologies
for IFNA13

Services
for IFNA13