Human Gene IFNA16 (ENST00000380216.1) from GENCODE V44
  Description: Homo sapiens interferon alpha 16 (IFNA16), mRNA. (from RefSeq NM_002173)
Gencode Transcript: ENST00000380216.1
Gencode Gene: ENSG00000147885.4
Transcript (Including UTRs)
   Position: hg38 chr9:21,216,373-21,217,311 Size: 939 Total Exon Count: 1 Strand: -
Coding Region
   Position: hg38 chr9:21,216,736-21,217,305 Size: 570 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:21,216,373-21,217,311)mRNA (may differ from genome)Protein (189 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: IFN16_HUMAN
DESCRIPTION: RecName: Full=Interferon alpha-16; Short=IFN-alpha-16; AltName: Full=Interferon alpha-WA; Flags: Precursor;
FUNCTION: Produced by macrophages, IFN-alpha have antiviral activities. Interferon stimulates the production of two enzymes: a protein kinase and an oligoadenylate synthetase.
SUBCELLULAR LOCATION: Secreted.
SIMILARITY: Belongs to the alpha/beta interferon family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 0.00 RPKM in Adipose - Subcutaneous
Total median expression: 0.00 RPKM



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

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
3' UTR -54.90363-0.151 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
  InterPro Domains: Graphical view of domain structure
IPR009079 - 4_helix_cytokine-like_core
IPR012351 - 4_helix_cytokine_core
IPR015589 - Interferon_alpha
IPR000471 - Interferon_alpha/beta/delta

Pfam Domains:
PF00143 - Interferon alpha/beta domain

ModBase Predicted Comparative 3D Structure on P05015
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:0005125 cytokine activity
GO:0005126 cytokine receptor binding
GO:0005132 type I interferon receptor binding

Biological Process:
GO:0002250 adaptive immune response
GO:0002286 T cell activation involved in immune response
GO:0002323 natural killer cell activation involved in immune response
GO:0006952 defense response
GO:0006959 humoral immune response
GO:0007596 blood coagulation
GO:0010469 regulation of receptor activity
GO:0019221 cytokine-mediated signaling pathway
GO:0030183 B cell differentiation
GO:0033141 positive regulation of peptidyl-serine phosphorylation of STAT protein
GO:0042100 B cell proliferation
GO:0043330 response to exogenous dsRNA
GO:0045087 innate immune response
GO:0051607 defense response to virus
GO:0060337 type I interferon signaling pathway

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space


-  Descriptions from all associated GenBank mRNAs
  LP896542 - Sequence 1406 from Patent EP3253886.
M28585 - Human leukocyte interferon-alpha mRNA, complete cds, clone pIFN105.
JD323647 - Sequence 304671 from Patent EP1572962.
JD136735 - Sequence 117759 from Patent EP1572962.
JD323574 - Sequence 304598 from Patent EP1572962.
JD052310 - Sequence 33334 from Patent EP1572962.
JD410881 - Sequence 391905 from Patent EP1572962.
JD246165 - Sequence 227189 from Patent EP1572962.
X00140 - Human mRNA for interferon alpha-N.
E03189 - DNA encoding human IFN alpha 80A2.
BC140290 - Synthetic construct Homo sapiens clone IMAGE:100014290, MGC:173237 interferon, alpha 16 (IFNA16) mRNA, encodes complete protein.
BC146500 - Synthetic construct Homo sapiens clone IMAGE:100015033, MGC:180181 interferon, alpha 16 (IFNA16) mRNA, encodes complete protein.
AB463792 - Synthetic construct DNA, clone: pF1KB7204, Homo sapiens IFNA16 gene for interferon, alpha 16, without stop codon, in Flexi system.
JD251961 - Sequence 232985 from Patent EP1572962.
JD085789 - Sequence 66813 from Patent EP1572962.
JD052345 - Sequence 33369 from Patent EP1572962.
JD268800 - Sequence 249824 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04060 - Cytokine-cytokine receptor interaction
hsa04140 - Regulation of autophagy
hsa04612 - Antigen processing and presentation
hsa04620 - Toll-like receptor signaling pathway
hsa04622 - RIG-I-like receptor signaling pathway
hsa04623 - Cytosolic DNA-sensing pathway
hsa04630 - Jak-STAT signaling pathway
hsa04650 - Natural killer cell mediated cytotoxicity
hsa05320 - Autoimmune thyroid disease

Reactome (by CSHL, EBI, and GO)

Protein P05015 (Reactome details) participates in the following event(s):

R-HSA-909720 IFN alpha/beta binds to IFNAR2
R-HSA-909732 Phosphorylation of STAT2
R-HSA-909719 Recruitment of STAT2 to p-IFNAR1
R-HSA-909726 Phosphorylation of STAT1
R-HSA-909722 Release of p-STAT2:p-STAT1 dimer
R-HSA-997309 Dephosphorylation of STAT1 by SHP2
R-HSA-909724 Recruitment of IFNAR1
R-HSA-909730 Phosphorylation of INFAR1 by TYK2
R-HSA-997311 Dephosphorylation of TYK2 by PTP1B
R-HSA-909729 Activation of JAK kinases
R-HSA-912680 Inhibition of JAK kinase activity by SOCS1/3
R-HSA-997314 Dephosphorylation of JAK1 by SHP1
R-HSA-909718 Formation of p-STAT1 homodimer
R-HSA-909733 Interferon alpha/beta signaling
R-HSA-933541 TRAF6 mediated IRF7 activation
R-HSA-983231 Factors involved in megakaryocyte development and platelet production
R-HSA-912694 Regulation of IFNA signaling
R-HSA-913531 Interferon Signaling
R-HSA-168928 DDX58/IFIH1-mediated induction of interferon-alpha/beta
R-HSA-109582 Hemostasis
R-HSA-1280215 Cytokine Signaling in Immune system
R-HSA-168249 Innate Immune System
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: IFN16_HUMAN, NM_002173, P05015, Q5VV12, uc003zor.1
UCSC ID: ENST00000380216.1
RefSeq Accession: NM_002173
Protein: P05015 (aka IFN16_HUMAN)
CCDS: CCDS34996.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.