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Arntl2 aryl hydrocarbon receptor nuclear translocator-like 2 [ Mus musculus (house mouse) ]

Gene ID: 272322, updated on 10-Oct-2019

Summary

Official Symbol
Arntl2provided by MGI
Official Full Name
aryl hydrocarbon receptor nuclear translocator-like 2provided by MGI
Primary source
MGI:MGI:2684845
See related
Ensembl:ENSMUSG00000040187
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
CLIF; MOP9; BMAL2; bHLHe6; 4632430A05Rik
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. Alternatively spliced transcript variants encoding different isoforms have been described for this gene. [provided by RefSeq, Feb 2014]
Expression
Broad expression in bladder adult (RPKM 3.7), cortex adult (RPKM 2.2) and 21 other tissues See more
Orthologs

Genomic context

See Arntl2 in Genome Data Viewer
Location:
6; 6 G3
Exon count:
19
Annotation release Status Assembly Chr Location
108 current GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (146794729..146833529)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 6 NC_000072.5 (146754052..146781168)

Chromosome 6 - NC_000072.6Genomic Context describing neighboring genes Neighboring gene serine/threonine kinase 38 like Neighboring gene ribosomal protein S2 pseudogene Neighboring gene single-pass membrane protein with coiled-coil domains 2 Neighboring gene PTPRF interacting protein, binding protein 1 (liprin beta 1) Neighboring gene RIKEN cDNA 1700034J05 gene

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1) 

General gene information

Markers

Homology

Clone Names

  • MGC124257

Gene Ontology Provided by MGI

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
DNA-binding transcription factor activity ISO
Inferred from Sequence Orthology
more info
 
DNA-binding transcription factor activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
 
E-box binding IDA
Inferred from Direct Assay
more info
PubMed 
E-box binding ISO
Inferred from Sequence Orthology
more info
 
RNA polymerase II proximal promoter sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein dimerization activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
circadian rhythm ISO
Inferred from Sequence Orthology
more info
 
positive regulation of circadian rhythm IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
positive regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription, DNA-templated ISO
Inferred from Sequence Orthology
more info
 
regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
regulation of transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
rhythmic process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytoplasm IEA
Inferred from Electronic Annotation
more info
 
nucleolus ISO
Inferred from Sequence Orthology
more info
 
nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
nucleus ISO
Inferred from Sequence Orthology
more info
 
transcription factor complex IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
aryl hydrocarbon receptor nuclear translocator-like protein 2
Names
brain and muscle ARNT-like 2
brain-muscle-ARNT-like protein 2

NCBI Reference Sequences (RefSeq)

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)

  1. NM_001289679.1NP_001276608.1  aryl hydrocarbon receptor nuclear translocator-like protein 2 isoform 2

    See identical proteins and their annotated locations for NP_001276608.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AC164631, AK019506, AY005163, BY604501, DQ322241
    Consensus CDS
    CCDS80641.1
    UniProtKB/Swiss-Prot
    Q2VPD4
    UniProtKB/TrEMBL
    E9Q993, Q1A532
    Related
    ENSMUSP00000107265.1, ENSMUST00000111638.7
    Conserved Domains (4) summary
    cd00083
    Location:50106
    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, ...
    cd00130
    Location:308397
    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 ...
    pfam00989
    Location:127226
    PAS; PAS fold
    pfam14598
    Location:309401
    PAS_11; PAS domain
  2. NM_001289680.1NP_001276609.1  aryl hydrocarbon receptor nuclear translocator-like protein 2 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate in-frame splice site, compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
    Source sequence(s)
    AK019506, AY005163, BY604501, DQ355143
    Consensus CDS
    CCDS80640.1
    UniProtKB/Swiss-Prot
    Q2VPD4
    UniProtKB/TrEMBL
    E9Q994, Q1A3C9
    Related
    ENSMUSP00000107263.1, ENSMUST00000111636.7
    Conserved Domains (4) summary
    cd00083
    Location:50106
    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, ...
    cd00130
    Location:308407
    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 ...
    pfam00989
    Location:127226
    PAS; PAS fold
    pfam14598
    Location:309411
    PAS_11; PAS domain
  3. NM_001289681.1NP_001276610.1  aryl hydrocarbon receptor nuclear translocator-like protein 2 isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses an alternate splice site in the 5' region and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (4) has a shorter N-terminus than isoform 1.
    Source sequence(s)
    AK019506, AY014836, BY604501
    UniProtKB/Swiss-Prot
    Q2VPD4
    Conserved Domains (2) summary
    cd00130
    Location:84183
    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:85187
    PAS_11; PAS domain
  4. NM_172309.2NP_758513.1  aryl hydrocarbon receptor nuclear translocator-like protein 2 isoform 1

    See identical proteins and their annotated locations for NP_758513.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AK019506, AY005163, BY604501
    Consensus CDS
    CCDS20702.1
    UniProtKB/Swiss-Prot
    Q2VPD4
    Related
    ENSMUSP00000079373.4, ENSMUST00000080530.5
    Conserved Domains (4) summary
    cd00083
    Location:50106
    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, ...
    cd00130
    Location:308407
    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 ...
    pfam00989
    Location:127226
    PAS; PAS fold
    pfam14598
    Location:309411
    PAS_11; PAS domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 108 details...Open this link in a new tab

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

Reference GRCm38.p6 C57BL/6J

Genomic

  1. NC_000072.6 Reference GRCm38.p6 C57BL/6J

    Range
    146794729..146833529
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017321603.2XP_017177092.1  aryl hydrocarbon receptor nuclear translocator-like protein 2 isoform X1

    Conserved Domains (4) summary
    cd00083
    Location:50106
    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, ...
    cd00130
    Location:308407
    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 ...
    pfam00989
    Location:127226
    PAS; PAS fold
    pfam14598
    Location:309411
    PAS_11; PAS domain
  2. XM_006507061.2XP_006507124.1  aryl hydrocarbon receptor nuclear translocator-like protein 2 isoform X8

    Conserved Domains (2) summary
    cd00130
    Location:84183
    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:85187
    PAS_11; PAS domain
  3. XM_030255434.1XP_030111294.1  aryl hydrocarbon receptor nuclear translocator-like protein 2 isoform X9

  4. XM_006507055.4XP_006507118.1  aryl hydrocarbon receptor nuclear translocator-like protein 2 isoform X5

    Conserved Domains (4) summary
    cd00083
    Location:50106
    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, ...
    cd00130
    Location:308407
    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 ...
    pfam00989
    Location:127226
    PAS; PAS fold
    pfam14598
    Location:309411
    PAS_11; PAS domain
  5. XM_006507060.4XP_006507123.1  aryl hydrocarbon receptor nuclear translocator-like protein 2 isoform X7

    Conserved Domains (4) summary
    cd00083
    Location:50106
    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, ...
    cd00130
    Location:308407
    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 ...
    pfam00989
    Location:127226
    PAS; PAS fold
    pfam14598
    Location:309411
    PAS_11; PAS domain
  6. XM_006507049.3XP_006507112.1  aryl hydrocarbon receptor nuclear translocator-like protein 2 isoform X1

    See identical proteins and their annotated locations for XP_006507112.1

    Conserved Domains (4) summary
    cd00083
    Location:50106
    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, ...
    cd00130
    Location:308407
    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 ...
    pfam00989
    Location:127226
    PAS; PAS fold
    pfam14598
    Location:309411
    PAS_11; PAS domain
  7. XM_006507048.3XP_006507111.1  aryl hydrocarbon receptor nuclear translocator-like protein 2 isoform X1

    See identical proteins and their annotated locations for XP_006507111.1

    Conserved Domains (4) summary
    cd00083
    Location:50106
    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, ...
    cd00130
    Location:308407
    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 ...
    pfam00989
    Location:127226
    PAS; PAS fold
    pfam14598
    Location:309411
    PAS_11; PAS domain
  8. XM_006507056.3XP_006507119.1  aryl hydrocarbon receptor nuclear translocator-like protein 2 isoform X6

    Conserved Domains (4) summary
    cd00083
    Location:50106
    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, ...
    cd00130
    Location:308407
    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 ...
    pfam00989
    Location:127226
    PAS; PAS fold
    pfam14598
    Location:309411
    PAS_11; PAS domain
  9. XM_006507052.3XP_006507115.1  aryl hydrocarbon receptor nuclear translocator-like protein 2 isoform X2

    Conserved Domains (4) summary
    cd00083
    Location:50106
    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, ...
    cd00130
    Location:308397
    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 ...
    pfam00989
    Location:127226
    PAS; PAS fold
    pfam14598
    Location:309401
    PAS_11; PAS domain
  10. XM_006507054.3XP_006507117.1  aryl hydrocarbon receptor nuclear translocator-like protein 2 isoform X4

    See identical proteins and their annotated locations for XP_006507117.1

    UniProtKB/TrEMBL
    E9Q993
    Conserved Domains (4) summary
    cd00083
    Location:50106
    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, ...
    cd00130
    Location:308397
    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 ...
    pfam00989
    Location:127226
    PAS; PAS fold
    pfam14598
    Location:309401
    PAS_11; PAS domain
  11. XM_030255433.1XP_030111293.1  aryl hydrocarbon receptor nuclear translocator-like protein 2 isoform X8

  12. XM_006507053.3XP_006507116.1  aryl hydrocarbon receptor nuclear translocator-like protein 2 isoform X3

    See identical proteins and their annotated locations for XP_006507116.1

    UniProtKB/Swiss-Prot
    Q2VPD4
    Related
    ENSMUSP00000107266.1, ENSMUST00000111639.7
    Conserved Domains (4) summary
    cd00083
    Location:50106
    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, ...
    cd00130
    Location:308407
    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 ...
    pfam00989
    Location:127226
    PAS; PAS fold
    pfam14598
    Location:309411
    PAS_11; PAS domain
  13. XM_006507050.2XP_006507113.1  aryl hydrocarbon receptor nuclear translocator-like protein 2 isoform X1

    See identical proteins and their annotated locations for XP_006507113.1

    Conserved Domains (4) summary
    cd00083
    Location:50106
    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, ...
    cd00130
    Location:308407
    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 ...
    pfam00989
    Location:127226
    PAS; PAS fold
    pfam14598
    Location:309411
    PAS_11; PAS domain
  14. XM_006507051.4XP_006507114.1  aryl hydrocarbon receptor nuclear translocator-like protein 2 isoform X1

    See identical proteins and their annotated locations for XP_006507114.1

    Conserved Domains (4) summary
    cd00083
    Location:50106
    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, ...
    cd00130
    Location:308407
    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 ...
    pfam00989
    Location:127226
    PAS; PAS fold
    pfam14598
    Location:309411
    PAS_11; PAS domain

RNA

  1. XR_378168.4 RNA Sequence

  2. XR_003956203.1 RNA Sequence

  3. XR_003956204.1 RNA Sequence

Reference GRCm38.p6 NOD/ShiLtJ

Genomic

  1. NT_166305.2 Reference GRCm38.p6 NOD/ShiLtJ

    Range
    3305036..3332270
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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