Arid5a AT-rich interaction domain 5A [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Arid5aprovided by RGD
Official Full Name: AT-rich interaction domain 5Aprovided by RGD
Primary source: RGD:1311041
See related: EnsemblRapid:ENSRNOG00000015382 AllianceGenome:RGD:1311041
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
Summary: Predicted to enable several functions, including identical protein binding activity; nuclear receptor binding activity; and nucleic acid binding activity. Predicted to be involved in several processes, including cellular response to estrogen stimulus; positive regulation of T-helper 17 type immune response; and positive regulation of gene expression. Predicted to act upstream of or within chondrocyte differentiation; positive regulation of protein acetylation; and positive regulation of transcription by RNA polymerase II. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Orthologous to human ARID5A (AT-rich interaction domain 5A). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Heart (RPKM 42.7), Spleen (RPKM 32.8) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 9q21

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (46030513..46058729)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (38534612..38549467)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (42871907..42886725)

Chromosome 9 - NC_086027.1 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?

Submit: New GeneRIF Correction

General gene information

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Markers

RH138587 (e-PCR)
- UniSTS:220674

RH130730 (e-PCR)
- UniSTS:214014

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA stem-loop binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables mRNA 3'-UTR AU-rich region binding	ISO Inferred from Sequence Orthology more info
enables nuclear androgen receptor binding	ISO Inferred from Sequence Orthology more info
enables nuclear estrogen receptor binding	ISO Inferred from Sequence Orthology more info
enables nuclear retinoid X receptor binding	ISO Inferred from Sequence Orthology more info
enables nuclear thyroid hormone receptor binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables transcription cis-regulatory region binding	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 cellular response to estrogen stimulus	ISO Inferred from Sequence Orthology more info
involved_in cellular response to lipopolysaccharide	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within chondrocyte differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of 3'-UTR-mediated mRNA stabilization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of T-helper 1 cell cytokine production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of T-helper 17 type immune response	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of interleukin-17 production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of interleukin-6 production	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of protein acetylation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of tumor necrosis factor production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of type II interferon production	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in nucleolus	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	ISO Inferred from Sequence Orthology more info
part_of transcription regulator complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: AT-rich interactive domain-containing protein 5A

Names: AT rich interactive domain 5A (Mrf1 like)

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_001034934.2 → NP_001030106.1 AT-rich interactive domain-containing protein 5A isoform 1

See identical proteins and their annotated locations for NP_001030106.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000009

UniProtKB/TrEMBL

F7F3Y1, Q3KRC8
NM_001399179.1 → NP_001386108.1 AT-rich interactive domain-containing protein 5A isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000009

UniProtKB/TrEMBL

A0A8I6AIK6, A6INC7

Conserved Domains (1) summary

cd16884
Location:52 → 138

ARID_ARID5A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 5A (ARID5A) and similar proteins

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_086027.1 Reference GRCr8

Range

46030513..46058729

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063267145.1 → XP_063123215.1 AT-rich interactive domain-containing protein 5A isoform X1

UniProtKB/TrEMBL

A0A8I6AIK6
XM_039083561.2 → XP_038939489.1 AT-rich interactive domain-containing protein 5A isoform X3

UniProtKB/TrEMBL

A0A8I6AIK6

Related

ENSRNOP00000060873.3, ENSRNOT00000067688.4

Conserved Domains (1) summary

cl28902
Location:42 → 80

ARID; ARID/BRIGHT DNA binding domain family
XM_006244807.5 → XP_006244869.1 AT-rich interactive domain-containing protein 5A isoform X2

UniProtKB/TrEMBL

A0A0G2K0Q5, A0A8I6AIK6

Related

ENSRNOP00000071542.2, ENSRNOT00000089673.3

Conserved Domains (1) summary

smart00501
Location:50 → 142

BRIGHT; BRIGHT, ARID (A/T-rich interaction domain) domain
XM_039083563.2 → XP_038939491.1 AT-rich interactive domain-containing protein 5A isoform X4

UniProtKB/TrEMBL

F7F3Y1

Conserved Domains (1) summary

cl28902
Location:1 → 75

ARID; ARID/BRIGHT DNA binding domain family
XM_039083564.2 → XP_038939492.1 AT-rich interactive domain-containing protein 5A isoform X4

UniProtKB/TrEMBL

F7F3Y1

Conserved Domains (1) summary

cl28902
Location:1 → 75

ARID; ARID/BRIGHT DNA binding domain family
XM_017596440.3 → XP_017451929.1 AT-rich interactive domain-containing protein 5A isoform X5

UniProtKB/TrEMBL

F7F3Y1, Q3KRC8