Cbfa2t3 CBFA2/RUNX1 partner transcriptional co-repressor 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Cbfa2t3provided by RGD
Official Full Name: CBFA2/RUNX1 partner transcriptional co-repressor 3provided by RGD
Primary source: RGD:1310547
See related: EnsemblRapid:ENSRNOG00000014723 AllianceGenome:RGD:1310547
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable chromatin binding activity and transcription corepressor activity. Predicted to be involved in several processes, including positive regulation of proteasomal ubiquitin-dependent protein catabolic process; regulation of generation of precursor metabolites and energy; and response to hypoxia. Predicted to act upstream of or within granulocyte differentiation and negative regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Orthologous to human CBFA2T3 (CBFA2/RUNX1 partner transcriptional co-repressor 3). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Thymus (RPKM 43.9), Spleen (RPKM 43.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 19q12

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	19	NC_086037.1 (67584319..67658533, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	19	NC_051354.1 (50679897..50750028, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	19	NC_005118.4 (55438409..55510652, complement)

Chromosome 19 - NC_086037.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables transcription corepressor activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within granulocyte differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of glycolytic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of proteasomal ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in regulation of aerobic respiration	ISO Inferred from Sequence Orthology more info
involved_in response to hypoxia	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: protein CBFA2T3

Names: CBFA2/RUNX1 translocation partner 3; core-binding factor, runt domain, alpha subunit 2; core-binding factor, runt domain, alpha subunit 2; translocated to, 3; translocated to, 3

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001108453.1 → NP_001101923.1 protein CBFA2T3

See identical proteins and their annotated locations for NP_001101923.1

Status: PROVISIONAL

Source sequence(s)

CH473972

UniProtKB/TrEMBL

A0A0G2JVC6, A6IZT7, D4A303

Related

ENSRNOP00000019820.4, ENSRNOT00000019820.8

Conserved Domains (4) summary

pfam01753
Location:532 → 568

zf-MYND; MYND finger

pfam07531
Location:147 → 233

TAFH; NHR1 homology to TAF

pfam08788
Location:355 → 421

NHR2; NHR2 domain like

cl23750
Location:460 → 529

vATP-synt_E; ATP synthase (E/31 kDa) subunit

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086037.1 Reference GRCr8

Range

67584319..67658533 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006255770.5 → XP_006255832.1 protein CBFA2T3 isoform X1

UniProtKB/TrEMBL

A0A0G2JVC6

Conserved Domains (4) summary

pfam01753
Location:506 → 542

zf-MYND; MYND finger

pfam07531
Location:121 → 207

TAFH; NHR1 homology to TAF

pfam08788
Location:329 → 395

NHR2; NHR2 domain like

cl23750
Location:434 → 503

vATP-synt_E; ATP synthase (E/31 kDa) subunit
XM_063278155.1 → XP_063134225.1 protein CBFA2T3 isoform X2

UniProtKB/TrEMBL

A0A0G2JVC6
XM_063278154.1 → XP_063134224.1 protein CBFA2T3 isoform X3

UniProtKB/TrEMBL

A0A0G2JVC6, A0A8I6AK03
XM_063278153.1 → XP_063134223.1 protein CBFA2T3 isoform X3

UniProtKB/TrEMBL

A0A0G2JVC6, A0A8I6AK03

Related

ENSRNOP00000111221.1, ENSRNOT00000121193.1
XM_006255772.5 → XP_006255834.1 protein CBFA2T3 isoform X2

UniProtKB/TrEMBL

A0A0G2JVC6

Conserved Domains (4) summary

COG2811
Location:426 → 492

NtpH; Archaeal/vacuolar-type H+-ATPase subunit H [Energy production and conversion]

pfam08788
Location:321 → 387

NHR2; NHR2 domain like

pfam01753
Location:498 → 534

zf-MYND; MYND finger

pfam07531
Location:113 → 201

TAFH; NHR1 homology to TAF
XM_039097877.2 → XP_038953805.1 protein CBFA2T3 isoform X4

UniProtKB/TrEMBL

A0A0G2JVC6

Conserved Domains (4) summary

COG2811
Location:359 → 425

NtpH; Archaeal/vacuolar-type H+-ATPase subunit H [Energy production and conversion]

pfam08788
Location:254 → 320

NHR2; NHR2 domain like

pfam01753
Location:431 → 467

zf-MYND; MYND finger

pfam07531
Location:46 → 134

TAFH; NHR1 homology to TAF