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    Chd1l chromodomain helicase DNA binding protein 1-like [ Mus musculus (house mouse) ]

    Gene ID: 68058, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Chd1lprovided by MGI
    Official Full Name
    chromodomain helicase DNA binding protein 1-likeprovided by MGI
    Primary source
    MGI:MGI:1915308
    See related
    Ensembl:ENSMUSG00000028089 AllianceGenome:MGI:1915308
    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
    Alc1; Snf2p; 4432404A22Rik
    Summary
    Predicted to enable nucleotide binding activity. Predicted to be involved in cellular response to DNA damage stimulus and chromatin remodeling. Predicted to be located in cytosol; nucleoplasm; and plasma membrane. Predicted to be active in nucleus. Is expressed in genitourinary system. Orthologous to human CHD1L (chromodomain helicase DNA binding protein 1 like). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in testis adult (RPKM 13.9), bladder adult (RPKM 9.9) and 27 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Chd1l in Genome Data Viewer
    Location:
    3 F2.2; 3 42.17 cM
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (97468056..97517538, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (97560740..97610222, complement)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 40101 Neighboring gene olfactory receptor family 13 subfamily L member 2 Neighboring gene STARR-seq mESC enhancer starr_08465 Neighboring gene STARR-seq mESC enhancer starr_08467 Neighboring gene STARR-seq mESC enhancer starr_08468 Neighboring gene predicted gene, 40102 Neighboring gene flavin containing monooxygenase 5 Neighboring gene STARR-positive B cell enhancer ABC_E9010 Neighboring gene protein kinase, AMP-activated, beta 2 non-catalytic subunit Neighboring gene nuclear encoded tRNA glutamine 2 (anticodon CTG) Neighboring gene predicted gene, 31242

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Defective ALC1 nucleosome remodeling confers PARPi sensitization and synthetic lethality with HRD. Hewitt G, et al. Mol Cell, 2021 Feb 18. PMID 33333017, Free PMC Article
    2. The chromatin remodeling factor Chd1l is required in the preimplantation embryo. Snider AC, et al. Biol Open, 2013 Feb 15. PMID 23429299, Free PMC Article
    3. Transgenic CHD1L expression in mouse induces spontaneous tumors. Chen M, et al. PLoS One, 2009 Aug 24. PMID 19701453, Free PMC Article
    4. CHD1L Regulated PARP1-Driven Pluripotency and Chromatin Remodeling During the Early-Stage Cell Reprogramming. Jiang BH, et al. Stem Cells, 2015 Oct. PMID 26201266, Free PMC Article
    5. CHD1L promotes hepatocellular carcinoma progression and metastasis in mice and is associated with these processes in human patients. Chen L, et al. J Clin Invest, 2010 Apr. PMID 20335658, Free PMC Article

    See all (28) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Defective ALC1 nucleosome remodeling confers PARPi sensitization and synthetic lethality with HRD.
      Title: Defective ALC1 nucleosome remodeling confers PARPi sensitization and synthetic lethality with HRD.
    2. overexpression of CHD1L in embryonic cells upregulated the expression of ectoderm genes, especially PAX6
      Title: CHD1L Promotes Neuronal Differentiation in Human Embryonic Stem Cells by Upregulating PAX6.
    3. found a significant correlation of CHD1L with developmental transcriptional factors and lineage differentiation markers in clinical hepatocellular carcinoma patients
      Title: CHD1L promotes lineage reversion of hepatocellular carcinoma through opening chromatin for key developmental transcription factors.
    4. these results identify CHD1L as a key chromatin remodeler involved in PARP1/PARylation-regulated early-stage reprogramming and pluripotency in stem cells.
      Title: CHD1L Regulated PARP1-Driven Pluripotency and Chromatin Remodeling During the Early-Stage Cell Reprogramming.
    5. TRIM33 plays a role in PARP-dependent DNA damage response and regulates ALC1 activity by promoting its timely removal from sites of DNA damage.
      Title: Tripartite Motif-containing 33 (TRIM33) protein functions in the poly(ADP-ribose) polymerase (PARP)-dependent DNA damage response through interaction with Amplified in Liver Cancer 1 (ALC1) protein.
    6. CHD1L promotes hepatocellular carcinoma progression and metastasis in mice and is associated with these processes in human patients.
      Title: CHD1L promotes hepatocellular carcinoma progression and metastasis in mice and is associated with these processes in human patients.
    7. our data strongly support that CHD1L is a novel oncogene and plays an important role in hepatocellular carcinoma pathogenesis
      Title: Transgenic CHD1L expression in mouse induces spontaneous tumors.
    8. Reports that transgenic CHD1L (Alc1) expression induces spontaneous tumors in mice.
      Title: Transgenic CHD1L expression in mouse induces spontaneous tumors.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Gene trapped (2) 
    • Endonuclease-mediated (3) 

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by MGI

    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 hydrolase activity IEA
    Inferred from Electronic Annotation
    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 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 chromosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    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 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
    Names
    amplified in liver cancer 1
    NP_001405749.1
    NP_080815.1
    XP_017175190.1
    XP_036019152.1

    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_001418820.1 → NP_001405749.1  chromodomain-helicase-DNA-binding protein 1-like isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC140839

    2. NM_026539.3 → NP_080815.1  chromodomain-helicase-DNA-binding protein 1-like isoform 1

      See identical proteins and their annotated locations for NP_080815.1

      Status: VALIDATED

      Source sequence(s)
      AC140839
      Consensus CDS
      CCDS38561.1
      UniProtKB/Swiss-Prot
      Q3TMX1, Q6P5C0, Q9CXF7
      Related
      ENSMUSP00000029730.5, ENSMUST00000029730.5
      Conserved Domains (4) summary
      cd00046
      Location:59 → 199
      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.
      cd03331
      Location:721 → 871
      Macro_Poa1p_like_SNF2; Macro domain, Poa1p_like family, SNF2 subfamily. The macro domain is 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 ...
      pfam00176
      Location:43 → 322
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:340 → 453
      Helicase_C; Helicase conserved C-terminal domain

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000069.7 Reference GRCm39 C57BL/6J

      Range
      97468056..97517538 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036163259.1 → XP_036019152.1  chromodomain-helicase-DNA-binding protein 1-like isoform X3

      Conserved Domains (1) summary
      PLN03142
      Location:39 → 549
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional

    2. XM_017319701.3 → XP_017175190.1  chromodomain-helicase-DNA-binding protein 1-like isoform X2

      Conserved Domains (1) summary
      PLN03142
      Location:39 → 549
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9CXF7.1 GenPept UniProtKB/Swiss-Prot:Q9CXF7

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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