Human Gene IFRD2 (ENST00000417626.8_8) from GENCODE V47lift37
  Description: interferon related developmental regulator 2 (from RefSeq NM_006764.5)
Gencode Transcript: ENST00000417626.8_8
Gencode Gene: ENSG00000214706.12_13
Transcript (Including UTRs)
   Position: hg19 chr3:50,325,163-50,329,860 Size: 4,698 Total Exon Count: 12 Strand: -
Coding Region
   Position: hg19 chr3:50,325,622-50,329,705 Size: 4,084 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:50,325,163-50,329,860)mRNA (may differ from genome)Protein (442 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: IFRD2_HUMAN
DESCRIPTION: RecName: Full=Interferon-related developmental regulator 2; AltName: Full=Protein SKMC15;
INTERACTION: Q9Y6K5:OAS3; NbExp=2; IntAct=EBI-6115935, EBI-6115729;
TISSUE SPECIFICITY: Expressed in a variety of tissues.
SIMILARITY: Belongs to the IFRD family.
CAUTION: It is uncertain whether Met-1 or Met-65 is the initiator.
SEQUENCE CAUTION: Sequence=AAH01327.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=AAH01676.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=AAH07265.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=AAH07437.3; Type=Erroneous initiation; Note=Translation N-terminally extended;

-  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           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 39.56 RPKM in Stomach
Total median expression: 914.88 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 -77.50155-0.500 Picture PostScript Text
3' UTR -169.30459-0.369 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
IPR011989 - ARM-like
IPR016024 - ARM-type_fold
IPR006921 - Interferon-rel_develop_reg_C
IPR007701 - Interferon-rel_develop_reg_N

Pfam Domains:
PF04836 - Interferon-related protein conserved region
PF05004 - Interferon-related developmental regulator (IFRD)

SCOP Domains:
48371 - ARM repeat
48431 - Lipovitellin-phosvitin complex, superhelical domain

ModBase Predicted Comparative 3D Structure on Q12894
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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 DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003674 molecular_function
GO:0005515 protein binding

Cellular Component:
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  BC001676 - Homo sapiens interferon-related developmental regulator 2, mRNA (cDNA clone MGC:2549 IMAGE:2963821), complete cds.
BC007437 - Homo sapiens interferon-related developmental regulator 2, mRNA (cDNA clone MGC:4235 IMAGE:2961581), complete cds.
U09585 - Homo sapiens putative interferon-related protein (SM15) mRNA, partial cds.
AK097765 - Homo sapiens cDNA FLJ40446 fis, clone TESTI2040424, moderately similar to INTERFERON-RELATED DEVELOPMENTAL REGULATOR 2.
BC001327 - Homo sapiens interferon-related developmental regulator 2, mRNA (cDNA clone MGC:5552 IMAGE:3456988), complete cds.
BC007265 - Homo sapiens interferon-related developmental regulator 2, mRNA (cDNA clone MGC:15551 IMAGE:3138466), complete cds.
Y12395 - Homo sapiens mRNA for inteferon related IFRD2 (PC4-B) protein (IFRD2 gene), SM15 homologue.
AK074763 - Homo sapiens cDNA FLJ90282 fis, clone NT2RP1000551, highly similar to Interferon-related developmental regulator 2.
JD310657 - Sequence 291681 from Patent EP1572962.
JD353613 - Sequence 334637 from Patent EP1572962.
JD376994 - Sequence 358018 from Patent EP1572962.
JD485889 - Sequence 466913 from Patent EP1572962.
JD289912 - Sequence 270936 from Patent EP1572962.
JD555166 - Sequence 536190 from Patent EP1572962.
JD477794 - Sequence 458818 from Patent EP1572962.
JD467385 - Sequence 448409 from Patent EP1572962.
JD276274 - Sequence 257298 from Patent EP1572962.
JD432806 - Sequence 413830 from Patent EP1572962.
JD127360 - Sequence 108384 from Patent EP1572962.
JD391483 - Sequence 372507 from Patent EP1572962.
JD054973 - Sequence 35997 from Patent EP1572962.
JD216667 - Sequence 197691 from Patent EP1572962.
JD544629 - Sequence 525653 from Patent EP1572962.
JD095744 - Sequence 76768 from Patent EP1572962.
JD438422 - Sequence 419446 from Patent EP1572962.
EU832626 - Synthetic construct Homo sapiens clone HAIB:100067655; DKFZo008C0431 interferon-related developmental regulator 2 protein (IFRD2) gene, encodes complete protein.
EU832699 - Synthetic construct Homo sapiens clone HAIB:100067728; DKFZo004C0432 interferon-related developmental regulator 2 protein (IFRD2) gene, encodes complete protein.
BT019999 - Homo sapiens interferon-related developmental regulator 2 mRNA, complete cds.
KJ901850 - Synthetic construct Homo sapiens clone ccsbBroadEn_11244 IFRD2 gene, encodes complete protein.
DL492315 - Novel nucleic acids.
DL490807 - Novel nucleic acids.
AK309114 - Homo sapiens cDNA, FLJ99155.
CU675591 - Synthetic construct Homo sapiens gateway clone IMAGE:100017276 5' read IFRD2 mRNA.

-  Other Names for This Gene
  Alternate Gene Symbols: A0A0R4J2F6, ENST00000417626.1, ENST00000417626.2, ENST00000417626.3, ENST00000417626.4, ENST00000417626.5, ENST00000417626.6, ENST00000417626.7, IFRD2 , IFRD2_HUMAN, NM_006764, Q12894, Q9BVB4, Q9UJ88, uc319ngr.1, uc319ngr.2
UCSC ID: ENST00000417626.8_8
RefSeq Accession: NM_006764.5
Protein: Q12894 (aka IFRD2_HUMAN or IFR2_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

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