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    Chd9 chromodomain helicase DNA binding protein 9 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 307726, updated on 27-Dec-2024

    Summary

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    Official Symbol
    Chd9provided by RGD
    Official Full Name
    chromodomain helicase DNA binding protein 9provided by RGD
    Primary source
    RGD:1306795
    See related
    EnsemblRapid:ENSRNOG00000049302 AllianceGenome:RGD:1306795
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    CReMM
    Summary
    Predicted to enable ATP binding activity; DNA helicase activity; and hydrolase activity. Predicted to be involved in DNA duplex unwinding and chromatin organization. Predicted to be located in cytosol and nucleoplasm. Orthologous to human CHD9 (chromodomain helicase DNA binding protein 9). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 152.8), Brain (RPKM 148.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Chd9 in Genome Data Viewer
    Location:
    19p11
    Exon count:
    51
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 19 NC_086037.1 (32114379..32337488, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 19 NC_051354.1 (15941535..16146220, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 19 NC_005118.4 (17364969..17517757, complement)

    Chromosome 19 - NC_086037.1Genomic Context describing neighboring genes Neighboring gene AKT interacting protein Neighboring gene RB transcriptional corepressor like 2 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene U1 small nuclear ribonucleoprotein C pseudogene Neighboring gene CHD9 neighbor Neighboring gene macrophage migration inhibitory factor, pseudogene 3

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

    Bibliography

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    Related articles in PubMed

    1. Expression and regulation of CReMM, a chromodomain helicase-DNA-binding (CHD), in marrow stroma derived osteoprogenitors. Marom R, et al. J Cell Physiol, 2006 Jun. PMID 16523501

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. CReMM is a chromodomain helicase-DNA-binding protein expressed by osteoprogenitors[CReMM]
      Title: Expression and regulation of CReMM, a chromodomain helicase-DNA-binding (CHD), in marrow stroma derived osteoprogenitors.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    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 hydrolase activity 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 DNA duplex unwinding IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol 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
    		  
    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; chromodomain-helicase-DNA-binding protein 9

    NCBI Reference Sequences (RefSeq)

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    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_086037.1 Reference GRCr8

      Range
      32114379..32337488 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063278586.1 → XP_063134656.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

      UniProtKB/TrEMBL
      A0A096MJV7, A6KD85

    2. XM_039098055.2 → XP_038953983.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

      UniProtKB/TrEMBL
      A0A096MJV7, A6KD85
      Conserved Domains (7) summary
      PTZ00121
      Location:510 → 765
      PTZ00121; MAEBL; Provisional
      smart00592
      Location:2549 → 2593
      BRK; domain in transcription and CHROMO domain helicases
      PLN03142
      Location:858 → 1479
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      cd18663
      Location:769 → 827
      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:685 → 749
      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:2475 → 2515
      BRK; BRK domain
      cd21577
      Location:217 → 375
      KLF3_N; N-terminal domain of Kruppel-like factor 3

    3. XM_039098060.2 → XP_038953988.1  chromodomain-helicase-DNA-binding protein 9 isoform X2

      UniProtKB/TrEMBL
      A0A0G2JXQ2, A6KD85
      Conserved Domains (7) summary
      PTZ00121
      Location:510 → 765
      PTZ00121; MAEBL; Provisional
      smart00592
      Location:2548 → 2592
      BRK; domain in transcription and CHROMO domain helicases
      PLN03142
      Location:858 → 1479
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      cd18663
      Location:769 → 827
      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:685 → 749
      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:2474 → 2514
      BRK; BRK domain
      cd21577
      Location:217 → 375
      KLF3_N; N-terminal domain of Kruppel-like factor 3

    4. XM_039098062.2 → XP_038953990.1  chromodomain-helicase-DNA-binding protein 9 isoform X3

      UniProtKB/TrEMBL
      A0A096MIZ4, A6KD85
      Related
      ENSRNOP00000067932.2, ENSRNOT00000076138.3
      Conserved Domains (7) summary
      PTZ00121
      Location:510 → 765
      PTZ00121; MAEBL; Provisional
      smart00592
      Location:2533 → 2577
      BRK; domain in transcription and CHROMO domain helicases
      PLN03142
      Location:858 → 1479
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      cd18663
      Location:769 → 827
      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:685 → 749
      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:2459 → 2499
      BRK; BRK domain
      cd21577
      Location:217 → 375
      KLF3_N; N-terminal domain of Kruppel-like factor 3

    5. XM_039098054.2 → XP_038953982.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

      UniProtKB/TrEMBL
      A0A096MJV7, A6KD85
      Conserved Domains (7) summary
      PTZ00121
      Location:510 → 765
      PTZ00121; MAEBL; Provisional
      smart00592
      Location:2549 → 2593
      BRK; domain in transcription and CHROMO domain helicases
      PLN03142
      Location:858 → 1479
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      cd18663
      Location:769 → 827
      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:685 → 749
      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:2475 → 2515
      BRK; BRK domain
      cd21577
      Location:217 → 375
      KLF3_N; N-terminal domain of Kruppel-like factor 3

    6. XM_039098059.2 → XP_038953987.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

      UniProtKB/TrEMBL
      A0A096MJV7, A6KD85
      Conserved Domains (7) summary
      PTZ00121
      Location:510 → 765
      PTZ00121; MAEBL; Provisional
      smart00592
      Location:2549 → 2593
      BRK; domain in transcription and CHROMO domain helicases
      PLN03142
      Location:858 → 1479
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      cd18663
      Location:769 → 827
      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:685 → 749
      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:2475 → 2515
      BRK; BRK domain
      cd21577
      Location:217 → 375
      KLF3_N; N-terminal domain of Kruppel-like factor 3

    7. XM_039098057.2 → XP_038953985.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

      UniProtKB/TrEMBL
      A0A096MJV7, A6KD85
      Conserved Domains (7) summary
      PTZ00121
      Location:510 → 765
      PTZ00121; MAEBL; Provisional
      smart00592
      Location:2549 → 2593
      BRK; domain in transcription and CHROMO domain helicases
      PLN03142
      Location:858 → 1479
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      cd18663
      Location:769 → 827
      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:685 → 749
      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:2475 → 2515
      BRK; BRK domain
      cd21577
      Location:217 → 375
      KLF3_N; N-terminal domain of Kruppel-like factor 3

    8. XM_039098058.2 → XP_038953986.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

      UniProtKB/TrEMBL
      A0A096MJV7, A6KD85
      Conserved Domains (7) summary
      PTZ00121
      Location:510 → 765
      PTZ00121; MAEBL; Provisional
      smart00592
      Location:2549 → 2593
      BRK; domain in transcription and CHROMO domain helicases
      PLN03142
      Location:858 → 1479
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      cd18663
      Location:769 → 827
      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:685 → 749
      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:2475 → 2515
      BRK; BRK domain
      cd21577
      Location:217 → 375
      KLF3_N; N-terminal domain of Kruppel-like factor 3

    9. XM_039098056.2 → XP_038953984.1  chromodomain-helicase-DNA-binding protein 9 isoform X1

      UniProtKB/TrEMBL
      A0A096MJV7, A6KD85
      Related
      ENSRNOP00000070362.3, ENSRNOT00000078786.3
      Conserved Domains (7) summary
      PTZ00121
      Location:510 → 765
      PTZ00121; MAEBL; Provisional
      smart00592
      Location:2549 → 2593
      BRK; domain in transcription and CHROMO domain helicases
      PLN03142
      Location:858 → 1479
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      cd18663
      Location:769 → 827
      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:685 → 749
      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:2475 → 2515
      BRK; BRK domain
      cd21577
      Location:217 → 375
      KLF3_N; N-terminal domain of Kruppel-like factor 3

    10. XM_039098064.2 → XP_038953992.1  chromodomain-helicase-DNA-binding protein 9 isoform X5

      UniProtKB/TrEMBL
      A6KD85
      Conserved Domains (7) summary
      smart00592
      Location:2060 → 2104
      BRK; domain in transcription and CHROMO domain helicases
      PLN03142
      Location:385 → 1006
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      cd18663
      Location:296 → 354
      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:212 → 276
      CD1_tandem_CHD5-9_like; repeat 1 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 5-9, and similar proteins
      cd18061
      Location:386 → 607
      DEXHc_CHD9; DEAH-box helicase domain of the chromodomain helicase DNA binding protein 9
      pfam09507
      Location:3 → 202
      CDC27; DNA polymerase subunit Cdc27
      pfam07533
      Location:1986 → 2026
      BRK; BRK domain

    11. XM_039098063.2 → XP_038953991.1  chromodomain-helicase-DNA-binding protein 9 isoform X4

      UniProtKB/TrEMBL
      A6KD85
      Conserved Domains (7) summary
      smart00592
      Location:2076 → 2120
      BRK; domain in transcription and CHROMO domain helicases
      PLN03142
      Location:385 → 1006
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      cd18663
      Location:296 → 354
      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:212 → 276
      CD1_tandem_CHD5-9_like; repeat 1 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 5-9, and similar proteins
      cd18061
      Location:386 → 607
      DEXHc_CHD9; DEAH-box helicase domain of the chromodomain helicase DNA binding protein 9
      pfam09507
      Location:3 → 202
      CDC27; DNA polymerase subunit Cdc27
      pfam07533
      Location:2002 → 2042
      BRK; BRK domain

    12. XM_039098068.2 → XP_038953996.2  chromodomain-helicase-DNA-binding protein 9 isoform X6

    13. XM_063278587.1 → XP_063134657.1  chromodomain-helicase-DNA-binding protein 9 isoform X7

    14. XM_063278588.1 → XP_063134658.1  chromodomain-helicase-DNA-binding protein 9 isoform X8

    15. XM_039098069.2 → XP_038953997.1  chromodomain-helicase-DNA-binding protein 9 isoform X9

      Conserved Domains (5) summary
      PLN03142
      Location:858 → 1479
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      cd18663
      Location:769 → 827
      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:685 → 749
      CD1_tandem_CHD5-9_like; repeat 1 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 5-9, and similar proteins
      pfam09507
      Location:484 → 675
      CDC27; DNA polymerase subunit Cdc27
      cd21577
      Location:217 → 375
      KLF3_N; N-terminal domain of Kruppel-like factor 3
    Nucleotide Protein Strain
    Heading Accession and Version

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