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

Gene ID: 307726, updated on 6-Jun-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
Ensembl: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; ATP-dependent chromatin remodeler activity; and DNA helicase 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, Apr 2022]
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 ATP-dependent chromatin remodeler activity IEA
Inferred from Electronic Annotation
more info
  
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in chromatin remodeling 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
    Related
    ENSRNOP00000070362.2
    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
    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
    Related
    ENSRNOP00000068278.2
    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
    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
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