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    Chd7 chromodomain helicase DNA binding protein 7 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 312974, updated on 9-Dec-2024

    Summary

    Official Symbol
    Chd7provided by RGD
    Official Full Name
    chromodomain helicase DNA binding protein 7provided by RGD
    Primary source
    RGD:1311921
    See related
    EnsemblRapid:ENSRNOG00000006689 AllianceGenome:RGD:1311921
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable several functions, including ATP hydrolysis activity; ATP-dependent chromatin remodeler activity; and promoter-specific chromatin binding activity. Predicted to be involved in several processes, including face development; nervous system development; and regulation of growth hormone secretion. Predicted to act upstream of or within several processes, including circulatory system development; embryonic morphogenesis; and nervous system development. Predicted to be located in chromatin; nucleolus; and nucleoplasm. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in CHARGE syndrome and hypogonadotropic hypogonadism 5 with or without anosmia. Orthologous to human CHD7 (chromodomain helicase DNA binding protein 7). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Spleen (RPKM 51.6), Brain (RPKM 50.0) and 9 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Chd7 in Genome Data Viewer
    Location:
    5q13
    Exon count:
    39
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (26609245..26792736)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (21812007..21995358)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (21769087..21952036)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene RAB2A, member RAS oncogene family Neighboring gene uncharacterized LOC134486917 Neighboring gene uncharacterized LOC108350929 Neighboring gene uncharacterized LOC134478932 Neighboring gene uncharacterized LOC102552020

    Genomic regions, transcripts, and products

    Expression

    • Project title: 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

    General gene information

    Markers

    Gene Ontology Provided by RGD

    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 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 chromatin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables double-stranded DNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables forked DNA-dependent helicase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables four-way junction helicase activity IEA
    Inferred from Electronic Annotation
    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 promoter-specific chromatin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables single-stranded 3'-5' DNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in DNA duplex unwinding IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in T cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within adult heart development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within adult walking behavior ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within aorta development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within aorta morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within artery morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within atrioventricular canal development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in biological_process ND
    No biological Data available
    more info
     
    acts_upstream_of_or_within blood circulation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within blood vessel development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within blood vessel remodeling ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within camera-type eye development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cardiac septum morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in central nervous system development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in central nervous system development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in chordate embryonic development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in chromatin remodeling IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cognition ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cranial nerve development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cranial nerve development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within ear morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within embryonic hindlimb morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within epithelium development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in face development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within female genitalia development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in genitalia development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in heart morphogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within heart morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in heart morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within in utero embryonic development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in in utero embryonic development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in inner ear morphogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within inner ear morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in inner ear morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within innervation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in limb development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within locomotory behavior ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within nose development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in nose development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within olfactory behavior ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within olfactory bulb development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within olfactory nerve development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within positive regulation of multicellular organism growth ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of growth hormone secretion ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of neurogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within response to bacterium ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in retina development in camera-type eye ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within right ventricular compact myocardium morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within roof of mouth development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in secondary palate development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within semicircular canal morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within sensory perception of sound ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in skeletal system development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within tissue remodeling ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within ventricular trabecula myocardium morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in chromatin IBA
    Inferred from Biological aspect of Ancestor
    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

    Preferred Names
    chromodomain-helicase-DNA-binding protein 7
    NP_001101376.2
    XP_006237910.1
    XP_038965692.1
    XP_038965693.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001107906.4NP_001101376.2  chromodomain-helicase-DNA-binding protein 7

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      D3ZAP7
      Related
      ENSRNOP00000008901.7, ENSRNOT00000008901.9
      Conserved Domains (7) summary
      smart00592
      Location:26302674
      BRK; domain in transcription and CHROMO domain helicases
      PLN03142
      Location:9561555
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      pfam09606
      Location:2318
      Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
      cd18663
      Location:868925
      CD2_tandem_CHD5-9_like; repeat 2 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 5-9, and similar proteins
      cd18668
      Location:785849
      CD1_tandem_CHD5-9_like; repeat 1 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 5-9, and similar proteins
      pfam03154
      Location:194582
      Atrophin-1; Atrophin-1 family
      pfam07533
      Location:25522594
      BRK; BRK domain

    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

    1. NC_086023.1 Reference GRCr8

      Range
      26609245..26792736
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006237848.5XP_006237910.1  chromodomain-helicase-DNA-binding protein 7 isoform X2

      UniProtKB/TrEMBL
      D3ZAP7
      Conserved Domains (8) summary
      smart00592
      Location:26292673
      BRK; domain in transcription and CHROMO domain helicases
      cd00046
      Location:9761125
      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.
      pfam08430
      Location:299416
      Forkhead_N; Forkhead N-terminal region
      pfam09606
      Location:182567
      Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
      pfam00176
      Location:9601247
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:12791393
      Helicase_C; Helicase conserved C-terminal domain
      pfam00385
      Location:872924
      Chromo; Chromo (CHRromatin Organization MOdifier) domain
      pfam07533
      Location:25512591
      BRK; BRK domain
    2. XM_039109764.2XP_038965692.1  chromodomain-helicase-DNA-binding protein 7 isoform X1

      UniProtKB/TrEMBL
      D3ZAP7
      Conserved Domains (7) summary
      smart00592
      Location:26302674
      BRK; domain in transcription and CHROMO domain helicases
      PLN03142
      Location:9561555
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      pfam09606
      Location:2318
      Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
      cd18663
      Location:868925
      CD2_tandem_CHD5-9_like; repeat 2 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 5-9, and similar proteins
      cd18668
      Location:785849
      CD1_tandem_CHD5-9_like; repeat 1 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 5-9, and similar proteins
      pfam03154
      Location:194582
      Atrophin-1; Atrophin-1 family
      pfam07533
      Location:25522594
      BRK; BRK domain
    3. XM_039109765.2XP_038965693.1  chromodomain-helicase-DNA-binding protein 7 isoform X3

      Conserved Domains (6) summary
      smart00592
      Location:18361880
      BRK; domain in transcription and CHROMO domain helicases
      PLN03142
      Location:162761
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      cd18663
      Location:74131
      CD2_tandem_CHD5-9_like; repeat 2 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 5-9, and similar proteins
      cd18668
      Location:155
      CD1_tandem_CHD5-9_like; repeat 1 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 5-9, and similar proteins
      pfam07533
      Location:17581800
      BRK; BRK domain
      cl28899
      Location:163384
      DEAD-like_helicase_N; N-terminal helicase domain of the DEAD-box helicase superfamily