Human Gene RITA1 (ENST00000548278.2_8) from GENCODE V47lift37
  Description: RBPJ interacting and tubulin associated 1, transcript variant 1 (from RefSeq NM_032848.3)
Gencode Transcript: ENST00000548278.2_8
Gencode Gene: ENSG00000139405.16_11
Transcript (Including UTRs)
   Position: hg19 chr12:113,623,526-113,630,173 Size: 6,648 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr12:113,624,552-113,629,622 Size: 5,071 Coding Exon Count: 2 

Page IndexSequence and LinksUniProtKB CommentsPrimersGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:113,623,526-113,630,173)mRNA (may differ from genome)Protein (269 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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MGIPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RITA_HUMAN
DESCRIPTION: RecName: Full=RBPJ-interacting and tubulin-associated protein;
FUNCTION: Tubulin-binding protein that acts as a negative regulator of Notch signaling pathway. Shuttles between the cytoplasm and the nucleus and mediates the nuclear export of RBPJ/RBPSUH, thereby preventing the interaction between RBPJ/RBPSUH and NICD product of Notch proteins (Notch intracellular domain), leading to down-regulate Notch-mediated transcription. May play a role in neurogenesis.
SUBUNIT: Interacts with RBPJ/RBPSUH.
SUBCELLULAR LOCATION: Cytoplasm. Nucleus. Cytoplasm, cytoskeleton, centrosome. Note=Shuttles rapidly between the cytoplasm and the nucleus. The function of centrosome localization is still unclear.
SIMILARITY: Belongs to the RITA 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


+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 18.77 RPKM in Adrenal Gland
Total median expression: 438.22 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -229.90497-0.463 Picture PostScript Text
3' UTR -175.00551-0.318 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
  Pfam Domains:
PF17066 - RBPJ-interacting and tubulin associated protein

ModBase Predicted Comparative 3D Structure on Q96K30
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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    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0015631 tubulin binding

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0007219 Notch signaling pathway
GO:0007399 nervous system development
GO:0022008 neurogenesis
GO:0045746 negative regulation of Notch signaling pathway
GO:0051168 nuclear export

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005813 centrosome
GO:0005815 microtubule organizing center
GO:0005856 cytoskeleton


-  Descriptions from all associated GenBank mRNAs
  AK123762 - Homo sapiens cDNA FLJ41768 fis, clone IMR322006520.
AK075358 - Homo sapiens cDNA PSEC0043 fis, clone NT2RP1001002.
AK027741 - Homo sapiens cDNA FLJ14835 fis, clone OVARC1001369.
AY007158 - Homo sapiens clone CDABP0113 mRNA sequence.
JD229297 - Sequence 210321 from Patent EP1572962.
AK027733 - Homo sapiens cDNA FLJ14827 fis, clone OVARC1000886.
AK222908 - Homo sapiens mRNA for hypothetical protein FLJ14827 variant, clone: HRC05858.
JD405902 - Sequence 386926 from Patent EP1572962.
JD409140 - Sequence 390164 from Patent EP1572962.
BC022092 - Homo sapiens chromosome 12 open reading frame 52, mRNA (cDNA clone MGC:4570 IMAGE:3029785), complete cds.
JD459470 - Sequence 440494 from Patent EP1572962.
JD240299 - Sequence 221323 from Patent EP1572962.
JD332899 - Sequence 313923 from Patent EP1572962.
JD265511 - Sequence 246535 from Patent EP1572962.
JD070664 - Sequence 51688 from Patent EP1572962.
JD159380 - Sequence 140404 from Patent EP1572962.
CU692488 - Synthetic construct Homo sapiens gateway clone IMAGE:100018683 5' read C12orf52 mRNA.
HQ447411 - Synthetic construct Homo sapiens clone IMAGE:100070734; CCSB006021_03 chromosome 12 open reading frame 52 (C12orf52) gene, encodes complete protein.
KJ895055 - Synthetic construct Homo sapiens clone ccsbBroadEn_04449 C12orf52 gene, encodes complete protein.
JD407190 - Sequence 388214 from Patent EP1572962.
JD339092 - Sequence 320116 from Patent EP1572962.
JD410652 - Sequence 391676 from Patent EP1572962.
JD517165 - Sequence 498189 from Patent EP1572962.
JD559409 - Sequence 540433 from Patent EP1572962.
JD518183 - Sequence 499207 from Patent EP1572962.
JD155536 - Sequence 136560 from Patent EP1572962.
JD566592 - Sequence 547616 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B3KVZ4, C12orf52, C9JIN1, ENST00000548278.1, F8VRG5, NM_032848, PSEC0043, Q53GM3, Q96K25, Q96K30, RITA, RITA1_HUMAN, uc324zez.1, uc324zez.2
UCSC ID: ENST00000548278.2_8
RefSeq Accession: NM_032848.3
Protein: Q96K30 (aka RITA_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.