Arnt2 aryl hydrocarbon receptor nuclear translocator 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Arnt2provided by RGD
Official Full Name: aryl hydrocarbon receptor nuclear translocator 2provided by RGD
Primary source: RGD:2154
See related: EnsemblRapid:ENSRNOG00000013017 AllianceGenome:RGD:2154
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 DNA-binding transcription activator activity, RNA polymerase II-specific; aryl hydrocarbon receptor binding activity; and protein heterodimerization activity. Involved in several processes, including negative regulation of apoptotic process; response to estradiol; and response to hypoxia. Predicted to be located in nucleoplasm. Predicted to be part of aryl hydrocarbon receptor complex and transcription regulator complex. Predicted to be active in nucleus. Orthologous to human ARNT2 (aryl hydrocarbon receptor nuclear translocator 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Brain (RPKM 86.7), Kidney (RPKM 57.2) and 4 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q31

Exon count:: 25

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (147645354..147801986, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (138236235..138392868, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (146399217..146556437, complement)

Chromosome 1 - NC_086019.1 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?

Relative hippocampal NPAS4 expression was significantly lower in depression model rats compared to controls but there was no significant difference in hippocampal ARNT2 expression between groups
Title: Hippocampal expression of aryl hydrocarbon receptor nuclear translocator 2 and neuronal PAS domain protein 4 in a rat model of depression.
Data show that estradiol significantly increased the expression of aryl-hydrocarbon receptor (AhR) nuclear translocator 2 (Arnt2) mRNA in the hypothalamus, but induced no significant changes in the expression of AhR and Arnt1 mRNAs.
Title: Estrogen increases messenger RNA and immunoreactivity of aryl-hydrocarbon receptor nuclear translocator 2 in the rat mediobasal hypothalamus.
Identification of novel splice variants of ARNT2.
Title: Identification of novel splice variants of ARNT and ARNT2 in the rat.

Submit: New GeneRIF Correction

General gene information

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Markers

BG381198 (e-PCR)
- UniSTS:249861

D1Rat273 (e-PCR), detects polymorphism
- UniSTS:227089

BE110521 (e-PCR)
- UniSTS:245268

D63644 (e-PCR)
- UniSTS:124843

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	ISS Inferred from Sequence or Structural Similarity more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables aryl hydrocarbon receptor binding	ISO Inferred from Sequence Orthology more info
enables protein dimerization activity	IEA Inferred from Electronic Annotation more info
enables protein heterodimerization activity	ISO Inferred from Sequence Orthology more info
enables protein-containing complex binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in brain development	ISO Inferred from Sequence Orthology more info
involved_in brain development	ISS Inferred from Sequence or Structural Similarity more info
involved_in central nervous system development	ISO Inferred from Sequence Orthology more info
involved_in in utero embryonic development	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell population proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
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 transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of DNA-templated transcription	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
involved_in response to estradiol	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to hypoxia	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to hypoxia	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of aryl hydrocarbon receptor complex	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	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	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of transcription regulator complex	IEA Inferred from Electronic Annotation more info
part_of transcription regulator complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: aryl hydrocarbon receptor nuclear translocator 2

Names: ARNT protein 2

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_012781.4 → NP_036913.3 aryl hydrocarbon receptor nuclear translocator 2

See identical proteins and their annotated locations for NP_036913.3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000001

UniProtKB/Swiss-Prot

Q30B64, Q63643, Q63646, Q78E60, Q80T24

UniProtKB/TrEMBL

A0A8L2Q903, A6JCN8

Related

ENSRNOP00000084711.1, ENSRNOT00000105581.2

Conserved Domains (3) summary

cd18947
Location:62 → 124

bHLH-PAS_ARNT; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in aryl hydrocarbon receptor nuclear translocator (ARNT) and similar proteins

pfam00989
Location:137 → 243

PAS; PAS fold

pfam14598
Location:336 → 436

PAS_11; PAS domain

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_086019.1 Reference GRCr8

Range

147645354..147801986 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017588812.3 → XP_017444301.1 aryl hydrocarbon receptor nuclear translocator 2 isoform X1

UniProtKB/TrEMBL

A0A8L2Q903
XM_063281500.1 → XP_063137570.1 aryl hydrocarbon receptor nuclear translocator 2 isoform X2
XM_063281503.1 → XP_063137573.1 aryl hydrocarbon receptor nuclear translocator 2 isoform X2
XM_039101491.2 → XP_038957419.1 aryl hydrocarbon receptor nuclear translocator 2 isoform X2

UniProtKB/TrEMBL

A0A8L2Q903

Conserved Domains (3) summary

cd18947
Location:51 → 113

bHLH-PAS_ARNT; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in aryl hydrocarbon receptor nuclear translocator (ARNT) and similar proteins

pfam00989
Location:126 → 232

PAS; PAS fold

pfam14598
Location:325 → 425

PAS_11; PAS domain
XM_063281490.1 → XP_063137560.1 aryl hydrocarbon receptor nuclear translocator 2 isoform X2
XM_006229496.5 → XP_006229558.1 aryl hydrocarbon receptor nuclear translocator 2 isoform X2

See identical proteins and their annotated locations for XP_006229558.1

UniProtKB/TrEMBL

A0A8L2Q903

Conserved Domains (3) summary

cd18947
Location:51 → 113

bHLH-PAS_ARNT; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in aryl hydrocarbon receptor nuclear translocator (ARNT) and similar proteins

pfam00989
Location:126 → 232

PAS; PAS fold

pfam14598
Location:325 → 425

PAS_11; PAS domain
XM_008759606.4 → XP_008757828.1 aryl hydrocarbon receptor nuclear translocator 2 isoform X2

See identical proteins and their annotated locations for XP_008757828.1

UniProtKB/TrEMBL

A0A8L2Q903

Conserved Domains (3) summary

cd18947
Location:51 → 113

bHLH-PAS_ARNT; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in aryl hydrocarbon receptor nuclear translocator (ARNT) and similar proteins

pfam00989
Location:126 → 232

PAS; PAS fold

pfam14598
Location:325 → 425

PAS_11; PAS domain
XM_063281516.1 → XP_063137586.1 aryl hydrocarbon receptor nuclear translocator 2 isoform X5
XM_063281511.1 → XP_063137581.1 aryl hydrocarbon receptor nuclear translocator 2 isoform X4
XM_006229498.4 → XP_006229560.1 aryl hydrocarbon receptor nuclear translocator 2 isoform X3

See identical proteins and their annotated locations for XP_006229560.1

UniProtKB/TrEMBL

A0A8L2Q903, A6JCN9

Conserved Domains (5) summary

smart00091
Location:140 → 199

PAS; PAS domain

cd00130
Location:336 → 432

PAS; PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in ...

pfam00010
Location:65 → 117

HLH; Helix-loop-helix DNA-binding domain

pfam00989
Location:137 → 243

PAS; PAS fold

pfam14598
Location:336 → 436

PAS_11; PAS domain