Rere arginine-glutamic acid dipeptide repeats [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Rereprovided by RGD
Official Full Name: arginine-glutamic acid dipeptide repeatsprovided by RGD
Primary source: RGD:629475
See related: EnsemblRapid:ENSRNOG00000017940 AllianceGenome:RGD:629475
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Arp
Summary: Predicted to enable transcription coactivator activity and transcription corepressor activity. Predicted to be involved in negative regulation of DNA-templated transcription and positive regulation of DNA-templated transcription. Predicted to act upstream of or within chromatin remodeling and nervous system development. Predicted to be located in nuclear body. Predicted to be part of histone deacetylase complex. Predicted to be active in nucleus. Orthologous to human RERE (arginine-glutamic acid dipeptide repeats). [provided by Alliance of Genome Resources, Oct 2024]
Expression: Biased expression in Adrenal (RPKM 79.2), Kidney (RPKM 63.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q36

Exon count:: 27

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (166048770..166380559)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (160765855..161097678)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (167330966..167664506)

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 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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General gene information

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Markers

AI548909 (e-PCR)
- UniSTS:243720

RH143046 (e-PCR)
- UniSTS:232293

RH127536 (e-PCR)
- UniSTS:210846

SHGC-74183 (e-PCR)
- UniSTS:486

BI276205 (e-PCR)
- UniSTS:249838

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables chromatin binding	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables molecular_function	ND No biological Data available more info
enables sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables transcription coactivator activity	ISO Inferred from Sequence Orthology 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 biological_process	ND No biological Data available more info
acts_upstream_of_or_within branching morphogenesis of a nerve	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cerebellar Purkinje cell layer maturation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cerebellar granule cell precursor proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cerebellum development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within chromatin remodeling	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within dendrite morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within radial glia guided migration of Purkinje cell	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in PML body	IEA Inferred from Electronic Annotation more info
is_active_in cellular_component	ND No biological Data available more info
part_of histone deacetylase complex	ISO Inferred from Sequence Orthology more info
located_in nuclear body	ISO Inferred from Sequence Orthology 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	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: arginine-glutamic acid dipeptide repeats protein

Names: arginine-glutamic acid dipeptide (RE) repeats; atrophin-1-related protein

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_053885.2 → NP_446337.2 arginine-glutamic acid dipeptide repeats protein

See identical proteins and their annotated locations for NP_446337.2

Status: VALIDATED

Source sequence(s)

AI113241, AW920332, CA511326, CB328253, CB728130, CK470955, JAXUCZ010000005

UniProtKB/Swiss-Prot

Q62901

UniProtKB/TrEMBL

A0A8I6A4P7, A6IUD6

Conserved Domains (7) summary

smart00717
Location:395 → 440

SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains

cd11661
Location:394 → 439

SANT_MTA3_like; Myb-Like Dna-Binding Domain of MTA3 and related proteins

smart00401
Location:502 → 551

ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]

cd00202
Location:505 → 559

ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C

cd04709
Location:101 → 306

BAH_MTA; BAH, or Bromo Adjacent Homology domain, as present in MTA1 and similar proteins. The Metastasis-associated protein MTA1 is part of the NURD (nucleosome remodeling and deacetylating) complex and plays a role in cellular transformation and metastasis. BAH ...

pfam01448
Location:285 → 335

ELM2; ELM2 domain

pfam03154
Location:567 → 1558

Atrophin-1; Atrophin-1 family

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

166048770..166380559

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_008764198.4 → XP_008762420.1 arginine-glutamic acid dipeptide repeats protein isoform X1

See identical proteins and their annotated locations for XP_008762420.1

UniProtKB/TrEMBL

A0A8I6A4P7

Conserved Domains (7) summary

smart00717
Location:395 → 440

SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains

cd11661
Location:394 → 439

SANT_MTA3_like; Myb-Like Dna-Binding Domain of MTA3 and related proteins

smart00401
Location:502 → 551

ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]

cd00202
Location:505 → 559

ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C

cd04709
Location:101 → 306

BAH_MTA; BAH, or Bromo Adjacent Homology domain, as present in MTA1 and similar proteins. The Metastasis-associated protein MTA1 is part of the NURD (nucleosome remodeling and deacetylating) complex and plays a role in cellular transformation and metastasis. BAH ...

pfam01448
Location:285 → 335

ELM2; ELM2 domain

pfam03154
Location:567 → 1566

Atrophin-1; Atrophin-1 family
XM_008764201.4 → XP_008762423.1 arginine-glutamic acid dipeptide repeats protein isoform X4

UniProtKB/TrEMBL

A0A8I6A4P7

Related

ENSRNOP00000085727.2, ENSRNOT00000095232.2

Conserved Domains (7) summary

smart00717
Location:353 → 398

SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains

cd11661
Location:352 → 397

SANT_MTA3_like; Myb-Like Dna-Binding Domain of MTA3 and related proteins

smart00401
Location:460 → 509

ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]

cd00202
Location:463 → 517

ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C

cd04709
Location:101 → 264

BAH_MTA; BAH, or Bromo Adjacent Homology domain, as present in MTA1 and similar proteins. The Metastasis-associated protein MTA1 is part of the NURD (nucleosome remodeling and deacetylating) complex and plays a role in cellular transformation and metastasis. BAH ...

pfam01448
Location:243 → 293

ELM2; ELM2 domain

pfam03154
Location:525 → 1524

Atrophin-1; Atrophin-1 family
XM_006239438.5 → XP_006239500.1 arginine-glutamic acid dipeptide repeats protein isoform X2

UniProtKB/TrEMBL

A0A8I6A4P7

Related

ENSRNOP00000024443.5, ENSRNOT00000024443.5

Conserved Domains (7) summary

smart00717
Location:395 → 440

SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains

cd11661
Location:394 → 439

SANT_MTA3_like; Myb-Like Dna-Binding Domain of MTA3 and related proteins

smart00401
Location:502 → 551

ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]

cd00202
Location:505 → 559

ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C

cd04709
Location:101 → 306

BAH_MTA; BAH, or Bromo Adjacent Homology domain, as present in MTA1 and similar proteins. The Metastasis-associated protein MTA1 is part of the NURD (nucleosome remodeling and deacetylating) complex and plays a role in cellular transformation and metastasis. BAH ...

pfam01448
Location:285 → 335

ELM2; ELM2 domain

pfam03154
Location:567 → 1565

Atrophin-1; Atrophin-1 family
XM_008764200.4 → XP_008762422.1 arginine-glutamic acid dipeptide repeats protein isoform X3

UniProtKB/TrEMBL

A0A8I6A4P7

Conserved Domains (7) summary

smart00717
Location:395 → 440

SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains

cd11661
Location:394 → 439

SANT_MTA3_like; Myb-Like Dna-Binding Domain of MTA3 and related proteins

smart00401
Location:502 → 551

ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]

cd00202
Location:505 → 559

ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C

cd04709
Location:101 → 306

BAH_MTA; BAH, or Bromo Adjacent Homology domain, as present in MTA1 and similar proteins. The Metastasis-associated protein MTA1 is part of the NURD (nucleosome remodeling and deacetylating) complex and plays a role in cellular transformation and metastasis. BAH ...

pfam01448
Location:285 → 335

ELM2; ELM2 domain

pfam03154
Location:567 → 1557

Atrophin-1; Atrophin-1 family
XM_063287069.1 → XP_063143139.1 arginine-glutamic acid dipeptide repeats protein isoform X1
XM_063287068.1 → XP_063143138.1 arginine-glutamic acid dipeptide repeats protein isoform X1
XM_008764199.4 → XP_008762421.1 arginine-glutamic acid dipeptide repeats protein isoform X1

See identical proteins and their annotated locations for XP_008762421.1

UniProtKB/TrEMBL

A0A8I6A4P7

Conserved Domains (7) summary

smart00717
Location:395 → 440

SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains

cd11661
Location:394 → 439

SANT_MTA3_like; Myb-Like Dna-Binding Domain of MTA3 and related proteins

smart00401
Location:502 → 551

ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]

cd00202
Location:505 → 559

ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C

cd04709
Location:101 → 306

BAH_MTA; BAH, or Bromo Adjacent Homology domain, as present in MTA1 and similar proteins. The Metastasis-associated protein MTA1 is part of the NURD (nucleosome remodeling and deacetylating) complex and plays a role in cellular transformation and metastasis. BAH ...

pfam01448
Location:285 → 335

ELM2; ELM2 domain

pfam03154
Location:567 → 1566

Atrophin-1; Atrophin-1 family
XM_063287070.1 → XP_063143140.1 arginine-glutamic acid dipeptide repeats protein isoform X4
XM_006239441.5 → XP_006239503.1 arginine-glutamic acid dipeptide repeats protein isoform X5

UniProtKB/TrEMBL

A0A8I6A9U2

Related

ENSRNOP00000089254.1, ENSRNOT00000103362.2

Conserved Domains (6) summary

smart00717
Location:128 → 173

SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains

cd11661
Location:127 → 172

SANT_MTA3_like; Myb-Like Dna-Binding Domain of MTA3 and related proteins

smart00401
Location:235 → 284

ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]

cd00202
Location:238 → 292

ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C

pfam01448
Location:18 → 68

ELM2; ELM2 domain

pfam03154
Location:300 → 1299

Atrophin-1; Atrophin-1 family