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Chd1l chromodomain helicase DNA binding protein 1-like [ Rattus norvegicus (Norway rat) ]

Gene ID: 310707, updated on 4-Jan-2025

Summary

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Official Symbol
Chd1lprovided by RGD
Official Full Name
chromodomain helicase DNA binding protein 1-likeprovided by RGD
Primary source
RGD:1311935
See related
EnsemblRapid:ENSRNOG00000017669 AllianceGenome:RGD:1311935
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; histone reader activity; and poly-ADP-D-ribose modification-dependent protein binding activity. Predicted to be involved in DNA repair and chromatin remodeling. Predicted to be located in cytosol; nucleoplasm; and plasma membrane. Predicted to be active in nucleus and site of double-strand break. Orthologous to human CHD1L (chromodomain helicase DNA binding protein 1 like). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Kidney (RPKM 229.0), Liver (RPKM 57.8) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Chd1l in Genome Data Viewer
Location:
2q34
Exon count:
28
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (187819869..187906359, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (185138526..185217498, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (199714044..199792270, complement)

Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene olfactory receptor family 13 subfamily L member 2 Neighboring gene olfactory receptor pseudogene 391 Neighboring gene flavin containing dimethylaniline monoxygenase 5 Neighboring gene uncharacterized LOC102550575 Neighboring gene protein kinase AMP-activated non-catalytic subunit beta 2 Neighboring gene transfer RNA glutamine (anticodon CUG) 4

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. Poly(ADP-ribose)-dependent regulation of DNA repair by the chromatin remodeling enzyme ALC1. Ahel D, et al. Science, 2009 Sep 4. PMID 19661379, Free PMC Article
  2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

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 hydrolysis activity ISO
Inferred from Sequence Orthology
more info
  
enables ATP-dependent chromatin remodeler activity ISO
Inferred from Sequence Orthology
more info
  
enables DNA helicase activity IEA
Inferred from Electronic Annotation
more info
  
enables histone reader activity ISO
Inferred from Sequence Orthology
more info
  
enables nucleosome binding ISO
Inferred from Sequence Orthology
more info
  
enables nucleotide binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables nucleotide binding ISO
Inferred from Sequence Orthology
more info
  
enables poly-ADP-D-ribose modification-dependent protein binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in DNA damage response IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in DNA damage response ISO
Inferred from Sequence Orthology
more info
  
involved_in DNA duplex unwinding IEA
Inferred from Electronic Annotation
more info
  
involved_in DNA repair IEA
Inferred from Electronic Annotation
more info
  
involved_in DNA repair ISO
Inferred from Sequence Orthology
more info
  
involved_in chromatin remodeling IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in chromatin remodeling ISO
Inferred from Sequence Orthology
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
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in site of DNA damage ISO
Inferred from Sequence Orthology
more info
  
is_active_in site of double-strand break ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
chromodomain-helicase-DNA-binding protein 1-like
NP_001101174.2
XP_008759572.1
XP_008759575.1
XP_008759576.1
XP_038959729.1
XP_038959732.1
XP_063137972.1
XP_063137974.1

NCBI Reference Sequences (RefSeq)

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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_001107704.2 → NP_001101174.2  chromodomain-helicase-DNA-binding protein 1-like

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000002
    UniProtKB/TrEMBL
    A0A8I5ZYW5
    Related
    ENSRNOP00000084164.2, ENSRNOT00000099918.2

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_086020.1 Reference GRCr8

    Range
    187819869..187906359 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063281902.1 → XP_063137972.1  chromodomain-helicase-DNA-binding protein 1-like isoform X1

    UniProtKB/TrEMBL
    A0A8I5ZKZ9

  2. XM_063281904.1 → XP_063137974.1  chromodomain-helicase-DNA-binding protein 1-like isoform X3

    UniProtKB/TrEMBL
    A0A8I5ZYW5, D4ACG6
    Related
    ENSRNOP00000048925.6, ENSRNOT00000043937.7

  3. XM_008761354.4 → XP_008759576.1  chromodomain-helicase-DNA-binding protein 1-like isoform X5

    See identical proteins and their annotated locations for XP_008759576.1

    UniProtKB/TrEMBL
    A0A8I5ZYW5
    Conserved Domains (4) summary
    cd00046
    Location:1 → 133
    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:1 → 256
    SNF2_N; SNF2 family N-terminal domain
    pfam00271
    Location:274 → 387
    Helicase_C; Helicase conserved C-terminal domain
    cl00019
    Location:648 → 798
    Macro; Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly ...

  4. XM_008761353.4 → XP_008759575.1  chromodomain-helicase-DNA-binding protein 1-like isoform X4

    See identical proteins and their annotated locations for XP_008759575.1

    UniProtKB/TrEMBL
    A0A8I5ZYW5, A0A8I6A8B4
    Related
    ENSRNOP00000086360.1, ENSRNOT00000115624.2
    Conserved Domains (4) summary
    cd00046
    Location:90 → 230
    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:74 → 353
    SNF2_N; SNF2 family N-terminal domain
    pfam00271
    Location:371 → 484
    Helicase_C; Helicase conserved C-terminal domain
    cl00019
    Location:745 → 852
    Macro; Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly ...

  5. XM_008761350.4 → XP_008759572.1  chromodomain-helicase-DNA-binding protein 1-like isoform X2

    See identical proteins and their annotated locations for XP_008759572.1

    UniProtKB/TrEMBL
    A0A8I5ZYW5
    Conserved Domains (4) summary
    cd00046
    Location:90 → 230
    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:74 → 353
    SNF2_N; SNF2 family N-terminal domain
    pfam00271
    Location:371 → 484
    Helicase_C; Helicase conserved C-terminal domain
    cl00019
    Location:745 → 895
    Macro; Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly ...

  6. XM_039103801.2 → XP_038959729.1  chromodomain-helicase-DNA-binding protein 1-like isoform X6

    UniProtKB/TrEMBL
    A0A8I5ZYW5
    Conserved Domains (2) summary
    PLN03142
    Location:19 → 494
    PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
    cd03331
    Location:623 → 773
    Macro_Poa1p-like_SNF2; macrodomain, Poa1p-like family, SNF2 subfamily

  7. XM_039103804.2 → XP_038959732.1  chromodomain-helicase-DNA-binding protein 1-like isoform X7

    UniProtKB/TrEMBL
    A6K3B4
    Conserved Domains (2) summary
    PLN03142
    Location:1 → 164
    PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
    cd03331
    Location:293 → 443
    Macro_Poa1p-like_SNF2; macrodomain, Poa1p-like family, SNF2 subfamily

RNA

  1. XR_010063611.1 RNA Sequence

  2. XR_005501136.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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