Human Gene IRF2BP1 (ENST00000302165.5_6) from GENCODE V47lift37
  Description: interferon regulatory factor 2 binding protein 1 (from RefSeq NM_015649.3)
Gencode Transcript: ENST00000302165.5_6
Gencode Gene: ENSG00000170604.5_8
Transcript (Including UTRs)
   Position: hg19 chr19:46,386,866-46,389,399 Size: 2,534 Total Exon Count: 1 Strand: -
Coding Region
   Position: hg19 chr19:46,387,278-46,389,032 Size: 1,755 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq 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 (chr19:46,386,866-46,389,399)mRNA (may differ from genome)Protein (584 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MalacardsMGIOMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: I2BP1_HUMAN
DESCRIPTION: RecName: Full=Interferon regulatory factor 2-binding protein 1; Short=IRF-2-binding protein 1; Short=IRF-2BP1; AltName: Full=Probable E3 ubiquitin-protein ligase IRF2BP1; EC=6.3.2.-;
FUNCTION: Acts as a transcriptional corepressor in a IRF2- dependent manner; this repression is not mediated by histone deacetylase activities. May act as an E3 ligase towards JDP2, enhancing its polyubiquitination. Represses ATF2-dependent transcriptional activation.
SUBUNIT: Interacts with IRF2. Part of a corepressor complex containing IRF2 and IRF2BP2. Interacts with JDP2.
SUBCELLULAR LOCATION: Nucleus.
SIMILARITY: Belongs to the IRF2BP family.
SIMILARITY: Contains 1 RING-type zinc finger.

-  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: IRF2BP1
Diseases sorted by gene-association score: cecal disease (1)

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

+  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: 24.66 RPKM in Brain - Cerebellum
Total median expression: 612.53 RPKM



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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -208.60367-0.568 Picture PostScript Text
3' UTR -126.40412-0.307 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
IPR022750 - Interferon_reg_fac2-bd1_2_Znf
IPR018957 - Znf_C3HC4_RING-type

Pfam Domains:
PF00097 - Zinc finger, C3HC4 type (RING finger)
PF11261 - Interferon regulatory factor 2-binding protein zinc finger

SCOP Domains:
57850 - RING/U-box

ModBase Predicted Comparative 3D Structure on Q8IU81
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 DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0016740 transferase activity
GO:0046872 metal ion binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm


-  Descriptions from all associated GenBank mRNAs
  AY278022 - Homo sapiens interferon regulatory factor-2 binding protein 1 mRNA, complete cds.
BC078181 - Homo sapiens interferon regulatory factor 2 binding protein 1, mRNA (cDNA clone MGC:87754 IMAGE:6501537), complete cds.
BC038222 - Homo sapiens interferon regulatory factor 2 binding protein 1, mRNA (cDNA clone MGC:40474 IMAGE:5168442), complete cds.
BC039002 - Homo sapiens interferon regulatory factor 2 binding protein 1, mRNA (cDNA clone MGC:47879 IMAGE:5182566), complete cds.
AL080159 - Homo sapiens mRNA; cDNA DKFZp434M154 (from clone DKFZp434M154).
AK092407 - Homo sapiens cDNA FLJ35088 fis, clone PLACE6005559.
AX747529 - Sequence 1054 from Patent EP1308459.
BC005834 - Homo sapiens interferon regulatory factor 2 binding protein 1, mRNA (cDNA clone IMAGE:2821841), partial cds.
JD272654 - Sequence 253678 from Patent EP1572962.
JD527669 - Sequence 508693 from Patent EP1572962.
JD392293 - Sequence 373317 from Patent EP1572962.
JD210437 - Sequence 191461 from Patent EP1572962.
JD551130 - Sequence 532154 from Patent EP1572962.
AK223622 - Homo sapiens mRNA for interferon regulatory factor 2 binding protein 1 variant, clone: FCC134D11.
JD167377 - Sequence 148401 from Patent EP1572962.
JD126505 - Sequence 107529 from Patent EP1572962.
JD390327 - Sequence 371351 from Patent EP1572962.
JD054824 - Sequence 35848 from Patent EP1572962.
JD435172 - Sequence 416196 from Patent EP1572962.
AK315060 - Homo sapiens cDNA, FLJ96012, highly similar to Homo sapiens interferon regulatory factor 2 binding protein 1 (IRF2BP1), mRNA.
KJ898600 - Synthetic construct Homo sapiens clone ccsbBroadEn_07994 IRF2BP1 gene, encodes complete protein.
AB464594 - Synthetic construct DNA, clone: pF1KB9879, Homo sapiens IRF2BP1 gene for interferon regulatory factor 2 binding protein 1, without stop codon, in Flexi system.
JD406597 - Sequence 387621 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000302165.1, ENST00000302165.2, ENST00000302165.3, ENST00000302165.4, I2BP1_HUMAN, NM_015649, Q53EL7, Q6DC95, Q8IU81, Q9BRZ9, Q9Y4P4, uc317myw.1, uc317myw.2
UCSC ID: ENST00000302165.5_6
RefSeq Accession: NM_015649.3
Protein: Q8IU81 (aka I2BP1_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.