Human Gene RBPJL (ENST00000343694.8_11) from GENCODE V47lift37
  Description: recombination signal binding protein for immunoglobulin kappa J region like, transcript variant 1 (from RefSeq NM_014276.4)
Gencode Transcript: ENST00000343694.8_11
Gencode Gene: ENSG00000124232.11_16
Transcript (Including UTRs)
   Position: hg19 chr20:43,935,480-43,946,464 Size: 10,985 Total Exon Count: 12 Strand: +
Coding Region
   Position: hg19 chr20:43,935,563-43,945,599 Size: 10,037 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 (chr20:43,935,480-43,946,464)mRNA (may differ from genome)Protein (517 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RBPJL_HUMAN
DESCRIPTION: RecName: Full=Recombining binding protein suppressor of hairless-like protein; AltName: Full=Transcription factor RBP-L;
FUNCTION: Putative transcription factor, which cooperates with EBNA2 to activate transcription (By similarity).
SUBUNIT: Interacts weakly with EBNA2. Does not interact with any Notch proteins (By similarity).
SUBCELLULAR LOCATION: Nucleus (Probable).
SIMILARITY: Belongs to the Su(H) family.
SIMILARITY: Contains 1 IPT/TIG domain.

-  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

+  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: 365.33 RPKM in Pancreas
Total median expression: 369.48 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 -39.2083-0.472 Picture PostScript Text
3' UTR -302.70865-0.350 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
IPR015350 - Beta-trefoil_DNA-bd_dom
IPR013783 - Ig-like_fold
IPR014756 - Ig_E-set
IPR015351 - LAG1_DNA-bd
IPR008967 - p53-like_TF_DNA-bd

Pfam Domains:
PF09270 - Beta-trefoil DNA-binding domain
PF09271 - LAG1, DNA binding
PF20144 - TIG domain

SCOP Domains:
48726 - Immunoglobulin
81296 - E set domains
49417 - p53-like transcription factors
110217 - DNA-binding protein LAG-1 (CSL)

ModBase Predicted Comparative 3D Structure on Q9UBG7
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:0000977 RNA polymerase II regulatory region sequence-specific DNA binding
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0000982 transcription factor activity, RNA polymerase II core promoter proximal region sequence-specific binding
GO:0001228 transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding
GO:0003677 DNA binding
GO:0003682 chromatin binding
GO:0003700 transcription factor activity, sequence-specific DNA binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006366 transcription from RNA polymerase II promoter
GO:0007165 signal transduction
GO:0045893 positive regulation of transcription, DNA-templated
GO:0045944 positive regulation of transcription from RNA polymerase II promoter

Cellular Component:
GO:0005634 nucleus
GO:0005667 transcription factor complex


-  Descriptions from all associated GenBank mRNAs
  LF211864 - JP 2014500723-A/19367: Polycomb-Associated Non-Coding RNAs.
LF206009 - JP 2014500723-A/13512: Polycomb-Associated Non-Coding RNAs.
LF211866 - JP 2014500723-A/19369: Polycomb-Associated Non-Coding RNAs.
BC156875 - Synthetic construct Homo sapiens clone IMAGE:100062703, MGC:190592 recombination signal binding protein for immunoglobulin kappa J region-like (RBPJL) mRNA, encodes complete protein.
BC152895 - Synthetic construct Homo sapiens clone IMAGE:100016200, MGC:184125 recombination signal binding protein for immunoglobulin kappa J region-like (RBPJL) mRNA, encodes complete protein.
AB024964 - Homo sapiens mRNA for transcription factor RBP-L, complete cds.
AB026048 - Homo sapiens mRNA for RBP-L, complete cds.
AB027710 - Homo sapiens mRNA for transcription factor RBP-L, complete cds.
BC030213 - Homo sapiens recombination signal binding protein for immunoglobulin kappa J region-like, mRNA (cDNA clone IMAGE:5202520), with apparent retained intron.
DQ600948 - Homo sapiens piRNA piR-39014, complete sequence.
MA447441 - JP 2018138019-A/19367: Polycomb-Associated Non-Coding RNAs.
MA441586 - JP 2018138019-A/13512: Polycomb-Associated Non-Coding RNAs.
MA447443 - JP 2018138019-A/19369: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000343694.1, ENST00000343694.2, ENST00000343694.3, ENST00000343694.4, ENST00000343694.5, ENST00000343694.6, ENST00000343694.7, NM_014276, O95723, Q5QPU9, Q5QPV0, Q9UBG7, Q9ULV9, RBPJL_HUMAN, RBPL, RBPSUHL, uc317wsg.1, uc317wsg.2
UCSC ID: ENST00000343694.8_11
RefSeq Accession: NM_014276.4
Protein: Q9UBG7 (aka RBPJL_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.