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chd1 chromodomain helicase DNA binding protein 1 [ Danio rerio (zebrafish) ]

Gene ID: 563236, updated on 18-Sep-2024

Summary

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Official Symbol
chd1provided by ZNC
Official Full Name
chromodomain helicase DNA binding protein 1provided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-7120
See related
Ensembl:ENSDARG00000103787 AllianceGenome:ZFIN:ZDB-GENE-030131-7120
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
fc26h11; fk85d05; wu:fc26h11; wu:fk85d05; zgc:173506; si:dkey-106m21.4
Summary
Predicted to enable several functions, including ATP binding activity; DNA binding activity; and DNA helicase activity. Predicted to be located in nucleus. Human ortholog(s) of this gene implicated in castration-resistant prostate carcinoma and prostate cancer. Orthologous to human CHD1 (chromodomain helicase DNA binding protein 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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See chd1 in Genome Data Viewer
Location:
chromosome: 10
Exon count:
37
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 10 NC_007121.7 (6521376..6588793, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 10 NC_007121.6 (6520167..6587586, complement)

Chromosome 10 - NC_007121.7Genomic Context describing neighboring genes Neighboring gene decapping mRNA 2 Neighboring gene receptor accessory protein 5 Neighboring gene uncharacterized LOC103911715 Neighboring gene uncharacterized LOC137496556 Neighboring gene uncharacterized LOC137496555

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages 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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Related articles in PubMed

  1. Rescue of neural crest-derived phenotypes in a zebrafish CHARGE model by Sox10 downregulation. Asad Z, et al. Hum Mol Genet, 2016 Aug 15. PMID 27418670, Free PMC Article
  2. Multiple thyrotropin β-subunit and thyrotropin receptor-related genes arose during vertebrate evolution. Maugars G, et al. PLoS One, 2014. PMID 25386660, Free PMC Article
  3. Transcriptomic analyses reveal novel genes with sexually dimorphic expression in the zebrafish gonad and brain. Sreenivasan R, et al. PLoS One, 2008 Mar 12. PMID 18335061, Free PMC Article
  4. A network of epigenetic regulators guides developmental haematopoiesis in vivo. Huang HT, et al. Nat Cell Biol, 2013 Dec. PMID 24240475, Free PMC Article
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC173506

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables ATP hydrolysis activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ATP-dependent chromatin remodeler activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ATP-dependent chromatin remodeler activity IEA
Inferred from Electronic Annotation
more info
  
enables DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables chromatin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables helicase activity IEA
Inferred from Electronic Annotation
more info
  
enables histone binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in nucleosome organization IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in chromatin IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
chromodomain-helicase-DNA-binding protein 1
NP_001121770.2
XP_009303375.1
XP_009303376.1

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)

  1. NM_001128298.2 → NP_001121770.2  chromodomain-helicase-DNA-binding protein 1

    Status: VALIDATED

    Source sequence(s)
    BX005434, CU302319
    UniProtKB/TrEMBL
    A0A0R4IC05, A0A8N7UZ13
    Related
    ENSDARP00000130398.2, ENSDART00000171833.2
    Conserved Domains (9) summary
    PHA03118
    Location:1546 → 1648
    PHA03118; multifunctional expression regulator; Provisional
    COG0513
    Location:774 → 889
    SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
    cd00024
    Location:298 → 340
    CHROMO; Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence ...
    cd00046
    Location:487 → 632
    DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
    cd00079
    Location:770 → 897
    HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...
    pfam00176
    Location:471 → 752
    SNF2_N; SNF2 family N-terminal domain
    pfam00385
    Location:379 → 431
    Chromo; Chromo (CHRromatin Organization MOdifier) domain
    pfam08648
    Location:1552 → 1647
    DUF1777; Protein of unknown function (DUF1777)
    pfam13907
    Location:1395 → 1486
    DUF4208; Domain of unknown function (DUF4208)

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

  1. NC_007121.7 Reference GRCz11 Primary Assembly

    Range
    6521376..6588793 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_009305101.4 → XP_009303376.1  chromodomain-helicase-DNA-binding protein 1 isoform X2

    UniProtKB/TrEMBL
    A0A0R4IAE4, A0A8M3B320
    Related
    ENSDARP00000131003.1, ENSDART00000163788.2
    Conserved Domains (9) summary
    PHA03118
    Location:1630 → 1732
    PHA03118; multifunctional expression regulator; Provisional
    COG0513
    Location:774 → 889
    SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
    cd00024
    Location:298 → 340
    CHROMO; Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence ...
    cd00046
    Location:487 → 632
    DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
    cd00079
    Location:770 → 897
    HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...
    pfam00176
    Location:471 → 752
    SNF2_N; SNF2 family N-terminal domain
    pfam00385
    Location:379 → 431
    Chromo; Chromo (CHRromatin Organization MOdifier) domain
    pfam08648
    Location:1636 → 1731
    DUF1777; Protein of unknown function (DUF1777)
    pfam13907
    Location:1479 → 1570
    DUF4208; Domain of unknown function (DUF4208)

  2. XM_009305100.4 → XP_009303375.1  chromodomain-helicase-DNA-binding protein 1 isoform X1

    UniProtKB/TrEMBL
    A0A8M3B604
    Conserved Domains (9) summary
    PHA03118
    Location:1631 → 1733
    PHA03118; multifunctional expression regulator; Provisional
    COG0513
    Location:774 → 889
    SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
    cd00024
    Location:298 → 340
    CHROMO; Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence ...
    cd00046
    Location:487 → 632
    DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
    cd00079
    Location:770 → 897
    HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...
    pfam00176
    Location:471 → 752
    SNF2_N; SNF2 family N-terminal domain
    pfam00385
    Location:379 → 431
    Chromo; Chromo (CHRromatin Organization MOdifier) domain
    pfam08648
    Location:1637 → 1732
    DUF1777; Protein of unknown function (DUF1777)
    pfam13907
    Location:1480 → 1571
    DUF4208; Domain of unknown function (DUF4208)
Nucleotide Protein
Heading Accession and Version

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