Human Gene IFNA13 (ENST00000610660.2) from GENCODE V44
  Description: Homo sapiens interferon alpha 13 (IFNA13), mRNA. (from RefSeq NM_006900)
Gencode Transcript: ENST00000610660.2
Gencode Gene: ENSG00000233816.4
Transcript (Including UTRs)
   Position: hg38 chr9:21,367,372-21,368,057 Size: 686 Total Exon Count: 1 Strand: -
Coding Region
   Position: hg38 chr9:21,367,438-21,368,010 Size: 573 Coding Exon Count: 1 

Page IndexSequence and LinksPrimersMalaCardsCTDRNA-Seq Expression
Microarray ExpressionRNA StructureOther SpeciesmRNA DescriptionsPathwaysOther Names
Methods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:21,367,372-21,368,057)mRNA (may differ from genome)Protein (190 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
HPRDMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: IFNA13
Diseases sorted by gene-association score: malignant melanoma, somatic (1)

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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 0.20 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 0.52 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
5' UTR -5.1047-0.109 Picture PostScript Text
3' UTR -13.0066-0.197 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.

-  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
      
      
      
      
      

-  Descriptions from all associated GenBank mRNAs
  KJ891427 - Synthetic construct Homo sapiens clone ccsbBroadEn_00821 IFNA1 gene, encodes complete protein.
E00100 - DNA coding of interferon(HLyc IFN-8'(1)).
E00173 - cDNA encoding human interferon-8'(1).
E00103 - DNA coding of interferon(LyIFN-alpha-3).
E00176 - cDNA encoding human interferon-alpha-3.
BC093988 - Homo sapiens interferon, alpha 13, mRNA (cDNA clone MGC:121023 IMAGE:7939833), complete cds.
BC112002 - Homo sapiens interferon, alpha 1, mRNA (cDNA clone MGC:138207 IMAGE:8327470), complete cds.
BC069427 - Homo sapiens interferon, alpha 13, mRNA (cDNA clone MGC:96957 IMAGE:7262166), complete cds.
JD333528 - Sequence 314552 from Patent EP1572962.
JN848523 - Homo sapiens interferon alpha 1 mRNA, complete cds.
CU686802 - Synthetic construct Homo sapiens gateway clone IMAGE:100022569 5' read IFNA13 mRNA.
HQ448423 - Synthetic construct Homo sapiens clone IMAGE:100071851; CCSB013830_01 interferon, alpha 13 (IFNA13) gene, encodes complete protein.
KJ897036 - Synthetic construct Homo sapiens clone ccsbBroadEn_06430 IFNA13 gene, encodes complete protein.
HQ258738 - Synthetic construct Homo sapiens clone IMAGE:100072768 interferon, alpha 1 (IFNA1) gene, encodes complete protein.
AB464595 - Synthetic construct DNA, clone: pF1KB9785, Homo sapiens IFNA13 gene for interferon, alpha 13, without stop codon, in Flexi system.
JD499912 - Sequence 480936 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_inflamPathway - Cytokines and Inflammatory Response
h_il1rPathway - Signal transduction through IL1R
h_cytokinePathway - Cytokine Network
h_dcPathway - Dendritic cells in regulating TH1 and TH2 Development
h_ifnaPathway - IFN alpha signaling pathway

-  Other Names for This Gene
  Alternate Gene Symbols: A0A087WWS6, ENST00000610660.1, NM_006900, uc003zpa.1, uc003zpa.2, uc003zpa.3, uc003zpa.4
UCSC ID: ENST00000610660.2
RefSeq Accession: NM_006900

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