Bmal2 basic helix-loop-helix ARNT like 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Bmal2provided by RGD
Official Full Name: basic helix-loop-helix ARNT like 2provided by RGD
Primary source: RGD:620230
See related: EnsemblRapid:ENSRNOG00000001830 AllianceGenome:RGD:620230
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: Arnt4; Arntl2
Summary: This gene encodes a basic helix-loop-helix transcription factor belonging to the PAS (Per, Arnt, Sim) superfamily. The PAS proteins play important roles in adaptation to low atmospheric and cellular oxygen levels, exposure to certain environmental pollutants, and diurnal oscillations in light and temperature. This protein forms a transcriptionally active heterodimer with the circadian Clock protein, the structurally related Mop4, and hypoxia-inducible factors, such as Hif1alpha. Consistent with its role as a biologically relevant partner of circadian and hypoxia factors, this protein is coexpressed in regions of the brain such as the thalamus, hypothalamus, and amygdala. [provided by RefSeq, Feb 2014]
Expression: Biased expression in Adrenal (RPKM 8.6), Liver (RPKM 6.8) and 7 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 4q44

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (181429097..181478384)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (179699432..179747710)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (181103774..181158415)

Chromosome 4 - NC_086022.1 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?

The Bmal2 gene in the higher sensitivity of the hepatic clock.
Title: Increased sensitivity of the circadian system to temporal changes in the feeding regime of spontaneously hypertensive rats - a potential role for Bmal2 in the liver.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
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 E-box binding	ISO Inferred from Sequence Orthology 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 protein dimerization activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in circadian regulation of gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within circadian rhythm	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of circadian rhythm	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 regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of CLOCK-BMAL transcription complex	ISO Inferred from Sequence Orthology more info
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 nucleolus	IEA Inferred from Electronic Annotation more info
located_in nucleolus	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: basic helix-loop-helix ARNT-like protein 2

Names: aryl hydrocarbon receptor nuclear translocator-like 2; aryl hydrocarbon receptor nuclear translocator-like protein 2; aryl hydrocarbon receptor nuclear translocator-like protein 2-like; transcription factor BMAL2

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_133391.2 → NP_596882.2 basic helix-loop-helix ARNT-like protein 2

Status: PROVISIONAL

Source sequence(s)

AY014838, JAXUCZ010000004

UniProtKB/TrEMBL

A0A0G2JYF4

Related

ENSRNOP00000070632.2, ENSRNOT00000077619.3

Conserved Domains (2) summary

cd00083
Location:50 → 106

HLH; Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, ...

cl25986
Location:280 → 382

PAS_3; PAS fold

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_086022.1 Reference GRCr8

Range

181429097..181478384

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039107944.2 → XP_038963872.1 basic helix-loop-helix ARNT-like protein 2 isoform X1

UniProtKB/TrEMBL

H9CTG8

Related

ENSRNOP00000071979.3, ENSRNOT00000084207.3

Conserved Domains (3) summary

cd00130
Location:171 → 268

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 ...

pfam14598
Location:357 → 464

PAS_11; PAS domain

cl00081
Location:87 → 146

bHLH_SF; basic Helix Loop Helix (bHLH) domain superfamily
XM_039107946.2 → XP_038963874.1 basic helix-loop-helix ARNT-like protein 2 isoform X3

UniProtKB/TrEMBL

Q923L9

Related

ENSRNOP00000052338.6, ENSRNOT00000055473.6

Conserved Domains (3) summary

cd00130
Location:137 → 234

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 ...

pfam14598
Location:323 → 430

PAS_11; PAS domain

cl00081
Location:54 → 112

bHLH_SF; basic Helix Loop Helix (bHLH) domain superfamily
XM_039107945.2 → XP_038963873.1 basic helix-loop-helix ARNT-like protein 2 isoform X2

UniProtKB/TrEMBL

A0A0G2K1T7, H9CTG8

Conserved Domains (3) summary

cd00130
Location:171 → 260

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 ...

pfam14598
Location:349 → 456

PAS_11; PAS domain

cl00081
Location:87 → 146

bHLH_SF; basic Helix Loop Helix (bHLH) domain superfamily
XM_039107947.2 → XP_038963875.1 basic helix-loop-helix ARNT-like protein 2 isoform X4

UniProtKB/TrEMBL

Q923L9

Conserved Domains (3) summary

cd00130
Location:137 → 226

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 ...

pfam14598
Location:315 → 422

PAS_11; PAS domain

cl00081
Location:54 → 112

bHLH_SF; basic Helix Loop Helix (bHLH) domain superfamily
XM_039107948.2 → XP_038963876.1 basic helix-loop-helix ARNT-like protein 2 isoform X5

UniProtKB/TrEMBL

A6IN33

Conserved Domains (1) summary

pfam14598
Location:156 → 263

PAS_11; PAS domain
XM_039107951.2 → XP_038963879.1 basic helix-loop-helix ARNT-like protein 2 isoform X7

UniProtKB/TrEMBL

A6IN33

Conserved Domains (1) summary

pfam14598
Location:86 → 193

PAS_11; PAS domain
XM_039107949.2 → XP_038963877.1 basic helix-loop-helix ARNT-like protein 2 isoform X5

UniProtKB/TrEMBL

A6IN33

Conserved Domains (1) summary

pfam14598
Location:156 → 263

PAS_11; PAS domain
XM_039107950.2 → XP_038963878.1 basic helix-loop-helix ARNT-like protein 2 isoform X6

UniProtKB/TrEMBL

A6IN33

Conserved Domains (1) summary

pfam14598
Location:148 → 255

PAS_11; PAS domain