Human Gene IFNL1 (uc002okv.3) Description and Page Index
  Description: Homo sapiens interferon, lambda 1 (IFNL1), mRNA.
RefSeq Summary (NM_172140): This gene encodes a cytokine distantly related to type I interferons and the IL-10 family. This gene, interleukin 28A (IL28A), and interleukin 28B (IL28B) are three closely related cytokine genes that form a cytokine gene cluster on a chromosomal region mapped to 19q13. Expression of the cytokines encoded by the three genes can be induced by viral infection. All three cytokines have been shown to interact with a heterodimeric class II cytokine receptor that consists of interleukin 10 receptor, beta (IL10RB) and interleukin 28 receptor, alpha (IL28RA). [provided by RefSeq, Jul 2008]. Publication Note: This RefSeq record includes a subset of the publications that are available for this gene. Please see the Gene record to access additional publications. ##Evidence-Data-START## Transcript exon combination :: AY129150.1, BC117482.1 [ECO:0000332] RNAseq introns :: mixed/partial sample support SAMEA1966682, SAMEA1968832 [ECO:0000350] ##Evidence-Data-END## ##RefSeq-Attributes-START## MANE Ensembl match :: ENST00000333625.3/ ENSP00000329991.1 RefSeq Select criteria :: based on single protein-coding transcript ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chr19:39,786,965-39,789,312 Size: 2,348 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr19:39,787,062-39,789,156 Size: 2,095 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:39,786,965-39,789,312)mRNA (may differ from genome)Protein (200 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
HGNCHPRDLynxMGIneXtProtOMIM
PubMedReactomeStanford SOURCETreefamUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: IL29_HUMAN
DESCRIPTION: RecName: Full=Interleukin-29; Short=IL-29; AltName: Full=Cytokine Zcyto21; AltName: Full=Interferon lambda-1; Short=IFN-lambda-1; Flags: Precursor;
FUNCTION: Cytokine with immunomodulatory activity. May play a role in antiviral immunity. Up-regulates MHC class I antigen expression. Ligand for the heterodimeric class II cytokine receptor composed of IL10RB and IL28RA. The ligand/receptor complex seems to signal through the Jak-STAT pathway.
SUBCELLULAR LOCATION: Secreted.
INDUCTION: By viral infections or double-stranded RNA.
SIMILARITY: Belongs to the IL-28/IL-29 family.
WEB RESOURCE: Name=Wikipedia; Note=Interleukin-29 entry; URL="http://en.wikipedia.org/wiki/Interleukin_29";

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 0.11 RPKM in Spleen
Total median expression: 0.25 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -22.0097-0.227 Picture PostScript Text
3' UTR -25.51156-0.164 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  Pfam Domains:
PF15177 - Interleukin-28A

Protein Data Bank (PDB) 3-D Structure
MuPIT help

3OG4
- X-ray MuPIT

3OG6
- X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q8IU54
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
      
      
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005102 receptor binding
GO:0005125 cytokine activity
GO:0032003 interleukin-28 receptor binding

Biological Process:
GO:0002829 negative regulation of type 2 immune response
GO:0007259 JAK-STAT cascade
GO:0008285 negative regulation of cell proliferation
GO:0010469 regulation of receptor activity
GO:0019221 cytokine-mediated signaling pathway
GO:0032696 negative regulation of interleukin-13 production
GO:0032714 negative regulation of interleukin-5 production
GO:0032729 positive regulation of interferon-gamma production
GO:0042531 positive regulation of tyrosine phosphorylation of STAT protein
GO:0043381 negative regulation of memory T cell differentiation
GO:0045087 innate immune response
GO:0045345 positive regulation of MHC class I biosynthetic process
GO:0045581 negative regulation of T cell differentiation
GO:0045892 negative regulation of transcription, DNA-templated
GO:0045893 positive regulation of transcription, DNA-templated
GO:0046427 positive regulation of JAK-STAT cascade
GO:0050778 positive regulation of immune response
GO:0051607 defense response to virus

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0005622 intracellular
GO:0032002 interleukin-28 receptor complex


-  Descriptions from all associated GenBank mRNAs
  AY129150 - Homo sapiens interleukin 29 (IL29) mRNA, complete cds.
BC117482 - Homo sapiens interleukin 29 (interferon, lambda 1), mRNA (cDNA clone MGC:151091 IMAGE:40126033), complete cds.
BC126183 - Homo sapiens interleukin 29 (interferon, lambda 1), mRNA (cDNA clone MGC:161461 IMAGE:8991899), complete cds.
JD271335 - Sequence 252359 from Patent EP1572962.
BC074985 - Homo sapiens interleukin 29 (interferon, lambda 1), mRNA (cDNA clone MGC:103913 IMAGE:30915302), complete cds.
AY336716 - Homo sapiens interleukin 29 (IL29) mRNA, complete cds.
HQ258085 - Synthetic construct Homo sapiens clone IMAGE:100072394 interleukin 29 (interferon, lambda 1) (IL29) gene, encodes complete protein.
KJ895944 - Synthetic construct Homo sapiens clone ccsbBroadEn_05338 IL29 gene, encodes complete protein.
KJ906472 - Synthetic construct Homo sapiens clone ccsbBroadEn_16142 IL29 gene, encodes complete protein.
HQ214053 - Homo sapiens IFN-lambda1 mRNA, partial cds.
AY184372 - Homo sapiens interferon-lambda1 mRNA, complete cds.
JF268782 - Homo sapiens interferon-lambda-1 mRNA, complete cds.
JD142989 - Sequence 124013 from Patent EP1572962.
JD530377 - Sequence 511401 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04060 - Cytokine-cytokine receptor interaction
hsa04630 - Jak-STAT signaling pathway

Reactome (by CSHL, EBI, and GO)

Protein Q8IU54 (Reactome details) participates in the following event(s):

R-HSA-448661 IFNL1 binds IL10RB:TYK2 and IFNLR1:JAK1
R-HSA-8987040 IFNL1:IFNLR1:p‑JAK1:IL10RB:p‑TYK2 phosphorylates IFNLR1
R-HSA-449836 Other interleukin signaling
R-HSA-8854691 Interleukin-20 family signaling
R-HSA-449147 Signaling by Interleukins
R-HSA-1280215 Cytokine Signaling in Immune system
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: A0AV25, IL29, IL29_HUMAN, NM_172140, NP_742152, Q17R34, Q8IU54, ZCYTO21
UCSC ID: uc002okv.3
RefSeq Accession: NM_172140
Protein: Q8IU54 (aka IL29_HUMAN)
CCDS: CCDS12531.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_172140.1
exon count: 5CDS single in 3' UTR: no RNA size: 856
ORF size: 603CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1126.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.