bmal1b basic helix-loop-helix ARNT like 1b [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: bmal1bprovided by ZNC
Official Full Name: basic helix-loop-helix ARNT like 1bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030408-1
See related: Ensembl:ENSDARG00000035732 AllianceGenome:ZFIN:ZDB-GENE-030408-1
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: arntl1b; zfBMAL3
Summary: Enables chromatin binding activity. Contributes to DNA binding activity. Acts upstream of or within photoperiodism and positive regulation of gene expression. Located in chromatin. Part of CLOCK-BMAL transcription complex. Is expressed in brain; heart; liver; muscle; and retina. Human ortholog(s) of this gene implicated in alcohol dependence and bipolar disorder. Orthologous to human BMAL1 (basic helix-loop-helix ARNT like 1). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 7

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	7	NC_007118.7 (66048121..66105819)
105	previous assembly	GRCz10 (GCF_000002035.5)	7	NC_007118.6 (65824441..65882735)

Chromosome 7 - NC_007118.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

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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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
contributes_to DNA binding	IDA Inferred from Direct Assay more info
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein dimerization activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within photoperiodism	IEP Inferred from Expression Pattern more info
acts_upstream_of_or_within positive regulation of gene expression	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of gene expression	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
part_of CLOCK-BMAL transcription complex	IDA Inferred from Direct Assay more info	PubMed
located_in PML body	IEA Inferred from Electronic Annotation more info
located_in chromatin	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of transcription regulator complex	IEA Inferred from Electronic Annotation more info
part_of transcription regulator complex	IPI Inferred from Physical Interaction more info

General protein information

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Preferred Names: basic helix-loop-helix ARNT like 1b

Names: aryl hydrocarbon receptor nuclear translocator-like 1b; brain and muscle ARNT-like 1b

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_178300.1 → NP_840085.1 basic helix-loop-helix ARNT like 1b

See identical proteins and their annotated locations for NP_840085.1

Status: PROVISIONAL

Source sequence(s)

AB087257

UniProtKB/TrEMBL

A0A8N1Z2W7, Q8JIG1

Related

ENSDARP00000114569.1, ENSDART00000139227.2

Conserved Domains (5) summary

smart00091
Location:151 → 210

PAS; PAS domain

cd00130
Location:343 → 438

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:76 → 128

HLH; Helix-loop-helix DNA-binding domain

pfam00989
Location:148 → 255

PAS; PAS fold

pfam14598
Location:341 → 444

PAS_11; PAS domain

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

NC_007118.7 Reference GRCz11 Primary Assembly

Range

66048121..66105819

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005166616.5 → XP_005166673.1 basic helix-loop-helix ARNT like 1b isoform X1

UniProtKB/TrEMBL

A0A8M2BE61

Related

ENSDARP00000095296.4, ENSDART00000104523.6

Conserved Domains (5) summary

smart00091
Location:205 → 264

PAS; PAS domain

cd00130
Location:397 → 492

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:130 → 182

HLH; Helix-loop-helix DNA-binding domain

pfam00989
Location:202 → 309

PAS; PAS fold

pfam14598
Location:395 → 498

PAS_11; PAS domain
XM_009303573.4 → XP_009301848.1 basic helix-loop-helix ARNT like 1b isoform X3

UniProtKB/TrEMBL

A0A8M3BBD8

Conserved Domains (5) summary

smart00091
Location:182 → 241

PAS; PAS domain

cd00130
Location:374 → 469

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:107 → 159

HLH; Helix-loop-helix DNA-binding domain

pfam00989
Location:179 → 286

PAS; PAS fold

pfam14598
Location:372 → 475

PAS_11; PAS domain
XM_021477412.2 → XP_021333087.1 basic helix-loop-helix ARNT like 1b isoform X2

UniProtKB/TrEMBL

A0A8M9PNL9

Conserved Domains (3) summary

smart00091
Location:200 → 259

PAS; PAS domain

pfam00010
Location:125 → 177

HLH; Helix-loop-helix DNA-binding domain

cl25986
Location:390 → 493

PAS_3; PAS fold