Runx1t1 RUNX1 partner transcriptional co-repressor 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Runx1t1provided by RGD
Official Full Name: RUNX1 partner transcriptional co-repressor 1provided by RGD
Primary source: RGD:1305490
See related: EnsemblRapid:ENSRNOG00000005673 AllianceGenome:RGD:1305490
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
Also known as: Cbfa2t1
Summary: Predicted to enable DNA-binding transcription factor binding activity; identical protein binding activity; and transcription corepressor activity. Predicted to be involved in negative regulation of DNA-templated transcription and negative regulation of fat cell differentiation. Predicted to act upstream of or within fat cell differentiation and regulation of DNA-templated transcription. Predicted to be located in nuclear matrix and nucleoplasm. Predicted to be active in nucleus. Orthologous to human RUNX1T1 (RUNX1 partner transcriptional co-repressor 1). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Lung (RPKM 31.0), Brain (RPKM 29.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q13

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (31984946..32136878)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (27187674..27338070)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (27284921..27440802)

Chromosome 5 - NC_086023.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

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?

We have concluded that Runx1t1 could be involved in the process through which radial glial cells differentiate into neurons
Title: Runx1t1 regulates the neuronal differentiation of radial glial cells from the rat hippocampus.

Submit: New GeneRIF Correction

General gene information

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Markers

BE118933 (e-PCR)
- UniSTS:248907

Runx1t1 (e-PCR), detects polymorphism
- UniSTS:498254

D5Uwm12 (e-PCR)
- UniSTS:239963

RH80460 (e-PCR)
- UniSTS:84061

BE107258 (e-PCR)
- UniSTS:261470

D8S1950 (e-PCR)
- UniSTS:66943

Runx1t1 (e-PCR), detects polymorphism
- UniSTS:515982

NoName (e-PCR)
- UniSTS:546979

Runx1t1 (e-PCR), detects polymorphism
- UniSTS:546979

Cbfa2t1h (e-PCR), detects polymorphism
- UniSTS:141244

RH144682 (e-PCR)
- UniSTS:233927

UniSTS:225014 (e-PCR)
- UniSTS:225014

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
NOT enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables identical protein 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
enables transcription corepressor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within fat cell 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 fat cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in nuclear matrix	ISO Inferred from Sequence Orthology more info
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
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: protein CBFA2T1

Names: CBFA2T1 identified gene homolog; RUNX1 translocation partner 1; acute myelogenous leukemia 1 translocation 1 protein; core-binding factor, runt domain, alpha subunit 2, translocated to, 1; core-binding factor, runt domain, alpha subunit 2; translocated to, 1; cyclin D-related; cyclin D-related; runt-related transcription factor 1; runt-related transcription factor 1; translocated to, 1 (cyclin D-related); translocated to, 1 (cyclin D-related)

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_001108657.1 → NP_001102127.1 protein CBFA2T1

See identical proteins and their annotated locations for NP_001102127.1

Status: PROVISIONAL

Source sequence(s)

CH473962

UniProtKB/TrEMBL

A6II90, D3ZWZ8

Related

ENSRNOP00000063830.1, ENSRNOT00000066191.3

Conserved Domains (4) summary

COG1390
Location:416 → 487

NtpE; Archaeal/vacuolar-type H+-ATPase subunit E/Vma4 [Energy production and conversion]

pfam08788
Location:310 → 376

NHR2; NHR2 domain like

pfam01753
Location:488 → 524

zf-MYND; MYND finger

pfam07531
Location:95 → 183

TAFH; NHR1 homology to TAF

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_086023.1 Reference GRCr8

Range

31984946..32136878

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006237901.5 → XP_006237963.1 protein CBFA2T1 isoform X1

See identical proteins and their annotated locations for XP_006237963.1

UniProtKB/TrEMBL

A0A0G2K0G0

Conserved Domains (4) summary

COG1390
Location:443 → 514

NtpE; Archaeal/vacuolar-type H+-ATPase subunit E/Vma4 [Energy production and conversion]

pfam08788
Location:337 → 403

NHR2; NHR2 domain like

pfam01753
Location:515 → 551

zf-MYND; MYND finger

pfam07531
Location:122 → 210

TAFH; NHR1 homology to TAF
XM_006237904.5 → XP_006237966.1 protein CBFA2T1 isoform X3

UniProtKB/TrEMBL

A0A8I6G5L4

Related

ENSRNOP00000081192.1, ENSRNOT00000111262.2

Conserved Domains (5) summary

TIGR02794
Location:372 → 483

tolA_full; TolA protein

pfam01753
Location:495 → 531

zf-MYND; MYND finger

pfam07531
Location:102 → 188

TAFH; NHR1 homology to TAF

pfam08788
Location:317 → 383

NHR2; NHR2 domain like

cl23750
Location:421 → 477

vATP-synt_E; ATP synthase (E/31 kDa) subunit
XM_008763550.4 → XP_008761772.1 protein CBFA2T1 isoform X1

See identical proteins and their annotated locations for XP_008761772.1

UniProtKB/TrEMBL

A0A0G2K0G0

Related

ENSRNOP00000090913.2, ENSRNOT00000094571.2

Conserved Domains (4) summary

COG1390
Location:443 → 514

NtpE; Archaeal/vacuolar-type H+-ATPase subunit E/Vma4 [Energy production and conversion]

pfam08788
Location:337 → 403

NHR2; NHR2 domain like

pfam01753
Location:515 → 551

zf-MYND; MYND finger

pfam07531
Location:122 → 210

TAFH; NHR1 homology to TAF
XM_006237903.5 → XP_006237965.1 protein CBFA2T1 isoform X2

UniProtKB/TrEMBL

A0A8I6AB42

Conserved Domains (4) summary

COG1390
Location:435 → 506

NtpE; Archaeal/vacuolar-type H+-ATPase subunit E/Vma4 [Energy production and conversion]

pfam08788
Location:329 → 395

NHR2; NHR2 domain like

pfam01753
Location:507 → 543

zf-MYND; MYND finger

pfam07531
Location:114 → 202

TAFH; NHR1 homology to TAF
XM_008763548.4 → XP_008761770.2 protein CBFA2T1 isoform X4

UniProtKB/TrEMBL

A6II91

Related

ENSRNOP00000071431.2, ENSRNOT00000078102.3

Conserved Domains (4) summary

COG1390
Location:406 → 477

NtpE; Archaeal/vacuolar-type H+-ATPase subunit E/Vma4 [Energy production and conversion]

pfam08788
Location:300 → 366

NHR2; NHR2 domain like

pfam01753
Location:478 → 514

zf-MYND; MYND finger

pfam07531
Location:85 → 173

TAFH; NHR1 homology to TAF
XM_039110219.2 → XP_038966147.1 protein CBFA2T1 isoform X5

Conserved Domains (3) summary

COG1390
Location:139 → 210

NtpE; Archaeal/vacuolar-type H+-ATPase subunit E/Vma4 [Energy production and conversion]

pfam08788
Location:33 → 99

NHR2; NHR2 domain like

pfam01753
Location:211 → 247

zf-MYND; MYND finger