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npas2 neuronal PAS domain protein 2 [ Danio rerio (zebrafish) ]

Gene ID: 352934, updated on 3-Oct-2019

Summary

Official Symbol
npas2provided by ZNC
Official Full Name
neuronal PAS domain protein 2provided by ZNC
Primary source
ZFIN:ZDB-GENE-030408-3
See related
Ensembl:ENSDARG00000016536
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Cyprinidae; Danio
Also known as
clock2; zfCLOCK2

Genomic context

See npas2 in Genome Data Viewer
Location:
chromosome: 5
Exon count:
23
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (22707909..22833042)
105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (22204117..22328456)
103 previous assembly Zv9 (GCF_000002035.4) 5 NC_007116.5 (24491250..24616321)

Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene melatonin receptor 1C Neighboring gene vacuolar ATPase assembly factor VMA21 Neighboring gene RPA1 related single stranded DNA binding protein Neighboring gene apolipoprotein O-like

Genomic regions, transcripts, and products

General gene information

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
DNA-binding transcription factor activity IEA
Inferred from Electronic Annotation
more info
 
contributes_to double-stranded DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
protein dimerization activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
circadian rhythm IGI
Inferred from Genetic Interaction
more info
PubMed 
photoperiodism IEP
Inferred from Expression Pattern
more info
PubMed 
regulation of transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
response to light stimulus IGI
Inferred from Genetic Interaction
more info
PubMed 
Component Evidence Code Pubs
cytoplasm IEA
Inferred from Electronic Annotation
more info
 
nucleus IEA
Inferred from Electronic Annotation
more info
 
transcription factor complex IEA
Inferred from Electronic Annotation
more info
 
transcription factor complex IPI
Inferred from Physical Interaction
more info
PubMed 

General protein information

Preferred Names
circadian clock protein PASD1

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_178299.1NP_840084.1  circadian clock protein PASD1

    See identical proteins and their annotated locations for NP_840084.1

    Status: PROVISIONAL

    Source sequence(s)
    AB087255
    UniProtKB/TrEMBL
    Q8JIG3
    Related
    ENSDARP00000016938.4, ENSDART00000014806.5
    Conserved Domains (3) summary
    cd00083
    Location:4096
    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, ...
    pfam00989
    Location:119203
    PAS; PAS fold
    cl25986
    Location:285388
    PAS_3; PAS fold

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007116.7 Reference GRCz11 Primary Assembly

    Range
    22707909..22833042
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005165120.4XP_005165177.1  circadian clock protein PASD1 isoform X1

    See identical proteins and their annotated locations for XP_005165177.1

    UniProtKB/TrEMBL
    Q8JIG3
    Conserved Domains (3) summary
    cd00083
    Location:4096
    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, ...
    pfam00989
    Location:119203
    PAS; PAS fold
    cl25986
    Location:285388
    PAS_3; PAS fold
  2. XM_021476023.1XP_021331698.1  circadian clock protein PASD1 isoform X1

    Conserved Domains (3) summary
    cd00083
    Location:4096
    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, ...
    pfam00989
    Location:119203
    PAS; PAS fold
    cl25986
    Location:285388
    PAS_3; PAS fold
  3. XM_005165121.4XP_005165178.1  circadian clock protein PASD1 isoform X1

    See identical proteins and their annotated locations for XP_005165178.1

    UniProtKB/TrEMBL
    Q8JIG3
    Conserved Domains (3) summary
    cd00083
    Location:4096
    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, ...
    pfam00989
    Location:119203
    PAS; PAS fold
    cl25986
    Location:285388
    PAS_3; PAS fold

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394574.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    28371..67264
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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