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chd9 chromodomain helicase DNA binding protein 9 [ Danio rerio (zebrafish) ]

Gene ID: 572355, updated on 8-Mar-2025

Summary

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Official Symbol
chd9provided by ZNC
Official Full Name
chromodomain helicase DNA binding protein 9provided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-497
See related
Ensembl:ENSDARG00000074498 AllianceGenome:ZFIN:ZDB-GENE-030131-497
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
fb08b06; fb34c12; wu:fb08b06; wu:fb34c12
Summary
Predicted to enable several functions, including ATP hydrolysis activity; ATP-dependent chromatin remodeler activity; and histone binding activity. Predicted to be involved in chromatin remodeling and regulation of gene expression. Predicted to be active in chromatin and nucleus. Is expressed in female organism. Orthologous to human CHD9 (chromodomain helicase DNA binding protein 9). [provided by Alliance of Genome Resources, Mar 2025]
Orthologs
human mouse all
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Genomic context

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See chd9 in Genome Data Viewer
Location:
chromosome: 7
Exon count:
42
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (36484599..36621210)
105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (36213119..36349436)

Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene nucleolar protein 58-like Neighboring gene akt interacting protein Neighboring gene uncharacterized LOC103911400 Neighboring gene uncharacterized LOC103911399 Neighboring gene uncharacterized LOC137490291 Neighboring gene uncharacterized LOC101885708 Neighboring gene uncharacterized LOC137490293

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
  • 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

General gene information

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Markers

Homology

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 DNA binding IEA
Inferred from Electronic Annotation
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 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
  
enables single-stranded 3'-5' DNA helicase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in chromatin remodeling IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of gene expression IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in chromatin IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
chromodomain-helicase-DNA-binding protein 9
XP_001922536.5
XP_005169069.2
XP_005169070.2
XP_005169071.2
XP_005169072.2
XP_005169073.2
XP_005169074.2
XP_021333594.1
XP_021333595.1
XP_021333596.1
XP_021333597.1
XP_021333598.1
XP_021333599.1
XP_021333600.1
XP_068074560.1
XP_068074561.1
XP_068078796.1
XP_068078797.1

NCBI Reference Sequences (RefSeq)

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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_007118.7 Reference GRCz11 Primary Assembly

    Range
    36484599..36621210
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021477919.1 → XP_021333594.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

    UniProtKB/TrEMBL
    A0A8M9QHX4
    Conserved Domains (6) summary
    smart00592
    Location:2610 → 2654
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:744 → 807
    CHROMO; Chromatin organization modifier domain
    PHA00666
    Location:2868 → 2922
    PHA00666; putative protease
    pfam00385
    Location:826 → 880
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    pfam07533
    Location:2535 → 2573
    BRK; BRK domain
    cl26465
    Location:908 → 1542
    SNF2_N; SNF2 family N-terminal domain

  2. XM_021477922.1 → XP_021333597.1  chromodomain-helicase-DNA-binding protein 9 isoform X3

    UniProtKB/TrEMBL
    A0A8M9PPZ7
    Conserved Domains (6) summary
    smart00592
    Location:2604 → 2648
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:744 → 807
    CHROMO; Chromatin organization modifier domain
    PHA00666
    Location:2862 → 2916
    PHA00666; putative protease
    pfam00385
    Location:826 → 880
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    pfam07533
    Location:2535 → 2573
    BRK; BRK domain
    cl26465
    Location:908 → 1542
    SNF2_N; SNF2 family N-terminal domain

  3. XM_021477923.1 → XP_021333598.1  chromodomain-helicase-DNA-binding protein 9 isoform X4

    UniProtKB/TrEMBL
    A0A8M9Q2M9
    Conserved Domains (6) summary
    smart00592
    Location:2592 → 2636
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:744 → 807
    CHROMO; Chromatin organization modifier domain
    PHA00666
    Location:2850 → 2904
    PHA00666; putative protease
    pfam00385
    Location:826 → 880
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    pfam07533
    Location:2517 → 2555
    BRK; BRK domain
    cl26465
    Location:908 → 1542
    SNF2_N; SNF2 family N-terminal domain

  4. XM_021477921.1 → XP_021333596.1  chromodomain-helicase-DNA-binding protein 9 isoform X2

    UniProtKB/TrEMBL
    A0A8M9QCX7
    Conserved Domains (6) summary
    smart00592
    Location:2609 → 2653
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:743 → 806
    CHROMO; Chromatin organization modifier domain
    PHA00666
    Location:2867 → 2921
    PHA00666; putative protease
    pfam00385
    Location:825 → 879
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    pfam07533
    Location:2534 → 2572
    BRK; BRK domain
    cl26465
    Location:907 → 1541
    SNF2_N; SNF2 family N-terminal domain

  5. XM_068222696.1 → XP_068078797.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

    UniProtKB/TrEMBL
    A0A8M9QHX4

  6. XM_068222695.1 → XP_068078796.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

    UniProtKB/TrEMBL
    A0A8M9QHX4

  7. XM_021477920.2 → XP_021333595.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

    UniProtKB/TrEMBL
    A0A8M9QHX4
    Conserved Domains (6) summary
    smart00592
    Location:2610 → 2654
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:744 → 807
    CHROMO; Chromatin organization modifier domain
    PHA00666
    Location:2868 → 2922
    PHA00666; putative protease
    pfam00385
    Location:826 → 880
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    pfam07533
    Location:2535 → 2573
    BRK; BRK domain
    cl26465
    Location:908 → 1542
    SNF2_N; SNF2 family N-terminal domain

  8. XM_021477925.2 → XP_021333600.1  chromodomain-helicase-DNA-binding protein 9 isoform X6

    UniProtKB/TrEMBL
    A0A8M9QHX9
    Conserved Domains (6) summary
    smart00592
    Location:2062 → 2106
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:196 → 259
    CHROMO; Chromatin organization modifier domain
    PHA00666
    Location:2320 → 2374
    PHA00666; putative protease
    pfam00385
    Location:278 → 332
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    pfam07533
    Location:1987 → 2025
    BRK; BRK domain
    cl26465
    Location:360 → 994
    SNF2_N; SNF2 family N-terminal domain

  9. XM_021477924.2 → XP_021333599.1  chromodomain-helicase-DNA-binding protein 9 isoform X5

    UniProtKB/TrEMBL
    A0A1D5NSR4, A0A8M9Q8T5
    Related
    ENSDARP00000142882.1, ENSDART00000173682.2
    Conserved Domains (6) summary
    smart00592
    Location:2105 → 2149
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:239 → 302
    CHROMO; Chromatin organization modifier domain
    PHA00666
    Location:2363 → 2417
    PHA00666; putative protease
    pfam00385
    Location:321 → 375
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    pfam07533
    Location:2030 → 2068
    BRK; BRK domain
    cl26465
    Location:403 → 1037
    SNF2_N; SNF2 family N-terminal domain

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394700.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    395526..511829
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005169012.5 → XP_005169069.2  chromodomain-helicase-DNA-binding protein 9 isoform X1

    UniProtKB/TrEMBL
    A0A8M2BGA5
    Conserved Domains (6) summary
    smart00592
    Location:2614 → 2658
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:748 → 811
    CHROMO; Chromatin organization modifier domain
    PHA00666
    Location:2872 → 2926
    PHA00666; putative protease
    pfam00385
    Location:830 → 884
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    pfam07533
    Location:2539 → 2577
    BRK; BRK domain
    cl26465
    Location:912 → 1546
    SNF2_N; SNF2 family N-terminal domain

  2. XM_005169015.5 → XP_005169072.2  chromodomain-helicase-DNA-binding protein 9 isoform X3

    UniProtKB/TrEMBL
    A0A8M2BGD1
    Conserved Domains (6) summary
    smart00592
    Location:2608 → 2652
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:748 → 811
    CHROMO; Chromatin organization modifier domain
    PHA00666
    Location:2866 → 2920
    PHA00666; putative protease
    pfam00385
    Location:830 → 884
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    pfam07533
    Location:2539 → 2577
    BRK; BRK domain
    cl26465
    Location:912 → 1546
    SNF2_N; SNF2 family N-terminal domain

  3. XM_005169016.5 → XP_005169073.2  chromodomain-helicase-DNA-binding protein 9 isoform X4

    UniProtKB/TrEMBL
    A0A8M2BGY8
    Conserved Domains (6) summary
    smart00592
    Location:2596 → 2640
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:748 → 811
    CHROMO; Chromatin organization modifier domain
    PHA00666
    Location:2854 → 2908
    PHA00666; putative protease
    pfam00385
    Location:830 → 884
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    pfam07533
    Location:2521 → 2559
    BRK; BRK domain
    cl26465
    Location:912 → 1546
    SNF2_N; SNF2 family N-terminal domain

  4. XM_005169014.5 → XP_005169071.2  chromodomain-helicase-DNA-binding protein 9 isoform X2

    UniProtKB/TrEMBL
    A0A8M2BGC9
    Conserved Domains (6) summary
    smart00592
    Location:2613 → 2657
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:747 → 810
    CHROMO; Chromatin organization modifier domain
    PHA00666
    Location:2871 → 2925
    PHA00666; putative protease
    pfam00385
    Location:829 → 883
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    pfam07533
    Location:2538 → 2576
    BRK; BRK domain
    cl26465
    Location:911 → 1545
    SNF2_N; SNF2 family N-terminal domain

  5. XM_068218459.1 → XP_068074560.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

    UniProtKB/TrEMBL
    A0A8M2BGA5

  6. XM_005169013.5 → XP_005169070.2  chromodomain-helicase-DNA-binding protein 9 isoform X1

    UniProtKB/TrEMBL
    A0A8M2BGA5
    Conserved Domains (6) summary
    smart00592
    Location:2614 → 2658
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:748 → 811
    CHROMO; Chromatin organization modifier domain
    PHA00666
    Location:2872 → 2926
    PHA00666; putative protease
    pfam00385
    Location:830 → 884
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    pfam07533
    Location:2539 → 2577
    BRK; BRK domain
    cl26465
    Location:912 → 1546
    SNF2_N; SNF2 family N-terminal domain

  7. XM_068218460.1 → XP_068074561.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

    UniProtKB/TrEMBL
    A0A8M2BGA5

  8. XM_001922501.8 → XP_001922536.5  chromodomain-helicase-DNA-binding protein 9 isoform X6

    UniProtKB/TrEMBL
    A0A8M1QR39
    Conserved Domains (6) summary
    smart00592
    Location:2066 → 2110
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:200 → 263
    CHROMO; Chromatin organization modifier domain
    PHA00666
    Location:2324 → 2378
    PHA00666; putative protease
    pfam00385
    Location:282 → 336
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    pfam07533
    Location:1991 → 2029
    BRK; BRK domain
    cl26465
    Location:364 → 998
    SNF2_N; SNF2 family N-terminal domain

  9. XM_005169017.5 → XP_005169074.2  chromodomain-helicase-DNA-binding protein 9 isoform X5

    UniProtKB/TrEMBL
    A0A8M2BGA6
    Conserved Domains (6) summary
    smart00592
    Location:2109 → 2153
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:243 → 306
    CHROMO; Chromatin organization modifier domain
    PHA00666
    Location:2367 → 2421
    PHA00666; putative protease
    pfam00385
    Location:325 → 379
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    pfam07533
    Location:2034 → 2072
    BRK; BRK domain
    cl26465
    Location:407 → 1041
    SNF2_N; SNF2 family N-terminal domain
Nucleotide Protein Strain
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