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Chd9 chromodomain helicase DNA binding protein 9 [ Mus musculus (house mouse) ]

Gene ID: 109151, updated on 3-Sep-2019

Summary

Official Symbol
Chd9provided by MGI
Official Full Name
chromodomain helicase DNA binding protein 9provided by MGI
Primary source
MGI:MGI:1924001
See related
Ensembl:ENSMUSG00000056608
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
AD013; PRIC320; mKIAA0308; 1810014J18Rik; 9030205D12Rik; A330063D19Rik
Expression
Ubiquitous expression in CNS E14 (RPKM 3.2), whole brain E14.5 (RPKM 3.0) and 28 other tissues See more
Orthologs

Genomic context

See Chd9 in Genome Data Viewer
Location:
8; 8 C4
Exon count:
47
Annotation release Status Assembly Chr Location
108 current GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (90828302..91054516)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 8 NC_000074.5 (93352734..93578407)

Chromosome 8 - NC_000074.6Genomic Context describing neighboring genes Neighboring gene predicted gene, 35963 Neighboring gene predicted gene, 19935 Neighboring gene VISTA enhancer mm1483 Neighboring gene predicted gene, 39221 Neighboring gene predicted gene, 22428 Neighboring gene RB transcriptional corepressor like 2 Neighboring gene thymoma viral proto-oncogene 1 interacting protein

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

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1) 
  • Endonuclease-mediated (2)  1 citation

Pathways from BioSystems

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
ATP binding IEA
Inferred from Electronic Annotation
more info
 
DNA binding IEA
Inferred from Electronic Annotation
more info
 
helicase activity IEA
Inferred from Electronic Annotation
more info
 
hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
hydrolase activity, acting on acid anhydrides IEA
Inferred from Electronic Annotation
more info
 
nucleotide binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
biological_process ND
No biological Data available
more info
 
chromatin organization IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytoplasm IEA
Inferred from Electronic Annotation
more info
 
nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
chromodomain-helicase-DNA-binding protein 9
Names
ATP-dependent helicase CHD9
CHD-9
PPAR-alpha-interacting complex protein 320 kDa
ciprofibrate-bound protein PRIC320
peroxisomal proliferator-activated receptor A-interacting complex 320 kDa protein
NP_001297459.1
NP_796198.1
XP_006530632.1
XP_006530633.1
XP_006530634.1
XP_006530635.1
XP_011246574.1
XP_011246575.1
XP_011246576.1
XP_011246577.1
XP_017168006.1
XP_017168007.1
XP_017168008.1
XP_017168009.1
XP_017168010.1
XP_030099098.1
XP_030099099.1
XP_030099100.1

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_001310530.1NP_001297459.1  chromodomain-helicase-DNA-binding protein 9 isoform 1

    See identical proteins and their annotated locations for NP_001297459.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer isoform (1).
    Source sequence(s)
    CF532542, DQ127229
    Consensus CDS
    CCDS80912.1
    UniProtKB/Swiss-Prot
    Q8BYH8
    Related
    ENSMUSP00000148088.1, ENSMUST00000209423.1
    Conserved Domains (7) summary
    smart00592
    Location:25462590
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:691753
    CHROMO; Chromatin organization modifier domain
    cd00046
    Location:8781027
    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.
    pfam00176
    Location:8621149
    SNF2_N; SNF2 family N-terminal domain
    pfam00271
    Location:11811295
    Helicase_C; Helicase conserved C-terminal domain
    pfam00385
    Location:773826
    Chromo; Chromo (CHRromatin Organization MOdifier) domain
    pfam07533
    Location:24742512
    BRK; BRK domain
  2. NM_177224.2NP_796198.1  chromodomain-helicase-DNA-binding protein 9 isoform 2

    See identical proteins and their annotated locations for NP_796198.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and uses an alternate in-frame splice site in the 3' coding region compared to variant 1. It encodes isoform 2, which is shorter than isoform 1.
    Source sequence(s)
    AK034446, DQ127229
    Consensus CDS
    CCDS22517.1
    UniProtKB/Swiss-Prot
    Q8BYH8
    Related
    ENSMUSP00000046356.6, ENSMUST00000048665.7
    Conserved Domains (7) summary
    smart00592
    Location:25302574
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:691753
    CHROMO; Chromatin organization modifier domain
    cd00046
    Location:8781027
    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.
    pfam00176
    Location:8621149
    SNF2_N; SNF2 family N-terminal domain
    pfam00271
    Location:11811295
    Helicase_C; Helicase conserved C-terminal domain
    pfam00385
    Location:773826
    Chromo; Chromo (CHRromatin Organization MOdifier) domain
    pfam07533
    Location:24582496
    BRK; BRK 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_000074.6 Reference GRCm38.p6 C57BL/6J

    Range
    90828302..91054516
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017312517.2XP_017168006.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

    UniProtKB/Swiss-Prot
    Q8BYH8
    Related
    ENSMUSP00000105243.2, ENSMUST00000109614.8
    Conserved Domains (7) summary
    smart00592
    Location:25462590
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:691753
    CHROMO; Chromatin organization modifier domain
    cd00046
    Location:8781027
    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.
    pfam00176
    Location:8621149
    SNF2_N; SNF2 family N-terminal domain
    pfam00271
    Location:11811295
    Helicase_C; Helicase conserved C-terminal domain
    pfam00385
    Location:773826
    Chromo; Chromo (CHRromatin Organization MOdifier) domain
    pfam07533
    Location:24742512
    BRK; BRK domain
  2. XM_017312519.2XP_017168008.1  chromodomain-helicase-DNA-binding protein 9 isoform X3

  3. XM_006530570.4XP_006530633.1  chromodomain-helicase-DNA-binding protein 9 isoform X2

    Conserved Domains (7) summary
    smart00592
    Location:25452589
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:691753
    CHROMO; Chromatin organization modifier domain
    cd00046
    Location:8781027
    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.
    pfam00176
    Location:8621149
    SNF2_N; SNF2 family N-terminal domain
    pfam00271
    Location:11811295
    Helicase_C; Helicase conserved C-terminal domain
    pfam00385
    Location:773826
    Chromo; Chromo (CHRromatin Organization MOdifier) domain
    pfam07533
    Location:24732511
    BRK; BRK domain
  4. XM_017312520.2XP_017168009.1  chromodomain-helicase-DNA-binding protein 9 isoform X4

  5. XM_011248272.3XP_011246574.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

    See identical proteins and their annotated locations for XP_011246574.1

    UniProtKB/Swiss-Prot
    Q8BYH8
    Conserved Domains (7) summary
    smart00592
    Location:25462590
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:691753
    CHROMO; Chromatin organization modifier domain
    cd00046
    Location:8781027
    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.
    pfam00176
    Location:8621149
    SNF2_N; SNF2 family N-terminal domain
    pfam00271
    Location:11811295
    Helicase_C; Helicase conserved C-terminal domain
    pfam00385
    Location:773826
    Chromo; Chromo (CHRromatin Organization MOdifier) domain
    pfam07533
    Location:24742512
    BRK; BRK domain
  6. XM_011248273.3XP_011246575.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

    See identical proteins and their annotated locations for XP_011246575.1

    UniProtKB/Swiss-Prot
    Q8BYH8
    Conserved Domains (7) summary
    smart00592
    Location:25462590
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:691753
    CHROMO; Chromatin organization modifier domain
    cd00046
    Location:8781027
    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.
    pfam00176
    Location:8621149
    SNF2_N; SNF2 family N-terminal domain
    pfam00271
    Location:11811295
    Helicase_C; Helicase conserved C-terminal domain
    pfam00385
    Location:773826
    Chromo; Chromo (CHRromatin Organization MOdifier) domain
    pfam07533
    Location:24742512
    BRK; BRK domain
  7. XM_017312518.1XP_017168007.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

    UniProtKB/Swiss-Prot
    Q8BYH8
    Conserved Domains (7) summary
    smart00592
    Location:25462590
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:691753
    CHROMO; Chromatin organization modifier domain
    cd00046
    Location:8781027
    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.
    pfam00176
    Location:8621149
    SNF2_N; SNF2 family N-terminal domain
    pfam00271
    Location:11811295
    Helicase_C; Helicase conserved C-terminal domain
    pfam00385
    Location:773826
    Chromo; Chromo (CHRromatin Organization MOdifier) domain
    pfam07533
    Location:24742512
    BRK; BRK domain
  8. XM_011248274.3XP_011246576.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

    See identical proteins and their annotated locations for XP_011246576.1

    UniProtKB/Swiss-Prot
    Q8BYH8
    Conserved Domains (7) summary
    smart00592
    Location:25462590
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:691753
    CHROMO; Chromatin organization modifier domain
    cd00046
    Location:8781027
    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.
    pfam00176
    Location:8621149
    SNF2_N; SNF2 family N-terminal domain
    pfam00271
    Location:11811295
    Helicase_C; Helicase conserved C-terminal domain
    pfam00385
    Location:773826
    Chromo; Chromo (CHRromatin Organization MOdifier) domain
    pfam07533
    Location:24742512
    BRK; BRK domain
  9. XM_011248275.3XP_011246577.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

    See identical proteins and their annotated locations for XP_011246577.1

    UniProtKB/Swiss-Prot
    Q8BYH8
    Conserved Domains (7) summary
    smart00592
    Location:25462590
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:691753
    CHROMO; Chromatin organization modifier domain
    cd00046
    Location:8781027
    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.
    pfam00176
    Location:8621149
    SNF2_N; SNF2 family N-terminal domain
    pfam00271
    Location:11811295
    Helicase_C; Helicase conserved C-terminal domain
    pfam00385
    Location:773826
    Chromo; Chromo (CHRromatin Organization MOdifier) domain
    pfam07533
    Location:24742512
    BRK; BRK domain
  10. XM_006530569.3XP_006530632.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

    See identical proteins and their annotated locations for XP_006530632.1

    UniProtKB/Swiss-Prot
    Q8BYH8
    Conserved Domains (7) summary
    smart00592
    Location:25462590
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:691753
    CHROMO; Chromatin organization modifier domain
    cd00046
    Location:8781027
    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.
    pfam00176
    Location:8621149
    SNF2_N; SNF2 family N-terminal domain
    pfam00271
    Location:11811295
    Helicase_C; Helicase conserved C-terminal domain
    pfam00385
    Location:773826
    Chromo; Chromo (CHRromatin Organization MOdifier) domain
    pfam07533
    Location:24742512
    BRK; BRK domain
  11. XM_030243238.1XP_030099098.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

  12. XM_017312521.2XP_017168010.1  chromodomain-helicase-DNA-binding protein 9 isoform X8

  13. XM_006530571.4XP_006530634.1  chromodomain-helicase-DNA-binding protein 9 isoform X5

    Conserved Domains (7) summary
    smart00592
    Location:20732117
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:218280
    CHROMO; Chromatin organization modifier domain
    cd00046
    Location:405554
    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.
    pfam00176
    Location:389676
    SNF2_N; SNF2 family N-terminal domain
    pfam00271
    Location:708822
    Helicase_C; Helicase conserved C-terminal domain
    pfam00385
    Location:300353
    Chromo; Chromo (CHRromatin Organization MOdifier) domain
    pfam07533
    Location:20012039
    BRK; BRK domain
  14. XM_030243239.1XP_030099099.1  chromodomain-helicase-DNA-binding protein 9 isoform X6

  15. XM_006530572.3XP_006530635.1  chromodomain-helicase-DNA-binding protein 9 isoform X7

    Conserved Domains (7) summary
    smart00592
    Location:20402084
    BRK; domain in transcription and CHROMO domain helicases
    smart00298
    Location:185247
    CHROMO; Chromatin organization modifier domain
    cd00046
    Location:372521
    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.
    pfam00176
    Location:356643
    SNF2_N; SNF2 family N-terminal domain
    pfam00271
    Location:675789
    Helicase_C; Helicase conserved C-terminal domain
    pfam00385
    Location:267320
    Chromo; Chromo (CHRromatin Organization MOdifier) domain
    pfam07533
    Location:19682006
    BRK; BRK domain
  16. XM_030243240.1XP_030099100.1  chromodomain-helicase-DNA-binding protein 9 isoform X8

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