U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

    Cdyl chromodomain Y-like [ Rattus norvegicus (Norway rat) ]

    Gene ID: 361237, updated on 2-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Cdylprovided by RGD
    Official Full Name
    chromodomain Y-likeprovided by RGD
    Primary source
    RGD:1549745
    See related
    EnsemblRapid:ENSRNOG00000032215 AllianceGenome:RGD:1549745
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    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 crotonyl-CoA hydratase activity; identical protein binding activity; and transcription corepressor activity. Predicted to be involved in negative regulation of peptidyl-lysine crotonylation; random inactivation of X chromosome; and spermatid development. Predicted to be located in chromosome; cytoplasm; and nuclear speck. Predicted to be active in nucleus. Orthologous to human CDYL (chromodomain Y like). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Testes (RPKM 156.4), Spleen (RPKM 105.6) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Cdyl in Genome Data Viewer
    Location:
    17p12
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (29188697..29409805, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (28982009..29204345, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (29672925..29895416, complement)

    Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene protein phosphatase 1, regulatory subunit 3G Neighboring gene ribonuclease P/MRP subunit p40 Neighboring gene uncharacterized LOC120097861 Neighboring gene ribosomal protein S7, pseudogene 16 Neighboring gene small nucleolar RNA SNORA17

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. CDYL suppresses epileptogenesis in mice through repression of axonal Nav1.6 sodium channel expression. Liu Y, et al. Nat Commun, 2017 Aug 25. PMID 28842554, Free PMC Article
    2. Tubulin acetylation: A novel functional avenue for CDYL in sperm. Parab S, et al. Cytoskeleton (Hoboken), 2017 Sep. PMID 28681565
    3. Ubiquitin ligase TRIM32 promotes dendrite arborization by mediating degradation of the epigenetic factor CDYL. Liu L, et al. FASEB J, 2022 Jan. PMID 34888944
    4. Chromodomain Protein CDYL Acts as a Crotonyl-CoA Hydratase to Regulate Histone Crotonylation and Spermatogenesis. Liu S, et al. Mol Cell, 2017 Sep 7. PMID 28803779
    5. Cdyl, a new partner of the inactive X chromosome and potential reader of H3K27me3 and H3K9me2. Escamilla-Del-Arenal M, et al. Mol Cell Biol, 2013 Dec. PMID 24144980, Free PMC Article

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Ubiquitin ligase TRIM32 promotes dendrite arborization by mediating degradation of the epigenetic factor CDYL.
      Title: Ubiquitin ligase TRIM32 promotes dendrite arborization by mediating degradation of the epigenetic factor CDYL.
    2. studies convincingly demonstrate the ability of CDYL to moonlight as a tubulin acetyltransferase.
      Title: Tubulin acetylation: A novel functional avenue for CDYL in sperm.
    3. The epigenetic factor CDYL regulates the gene expression of the voltage gated sodium channel, Nav1.6, which contributes to seizures in a rat model of epilepsy.
      Title: CDYL suppresses epileptogenesis in mice through repression of axonal Nav1.6 sodium channel expression.
    Submit: New GeneRIF Correction

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables acyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables chromatin binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables chromatin binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables crotonyl-CoA hydratase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables crotonyl-CoA hydratase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables crotonyl-CoA hydratase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables methylated histone binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    NOT enables methylated histone binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables methylated histone binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables methylated histone binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables protein-macromolecule adaptor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription corepressor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables transcription corepressor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription corepressor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription corepressor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of peptidyl-lysine crotonylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of peptidyl-lysine crotonylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of peptidyl-lysine crotonylation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in random inactivation of X chromosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in random inactivation of X chromosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in random inactivation of X chromosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in spermatid development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in spermatid development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in spermatid development ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in chromosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in chromosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nuclear speck IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear speck 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 nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    chromodomain Y-like protein
    Names
    CDY-like
    chromodomain protein, Y chromosome-like
    chromodomain protein, Y-like
    crotonyl-CoA hydratase
    putative tubulin acetyltransferase Cdyl
    NP_001014167.1
    XP_006253901.1
    XP_006253902.1
    XP_017456089.1
    XP_017456090.1
    XP_038951807.1
    XP_038951808.1
    XP_038951809.1
    XP_038951810.1
    XP_063132650.1
    XP_063132651.1
    XP_063132652.1
    XP_063132653.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001014145.1 → NP_001014167.1  chromodomain Y-like protein

      See identical proteins and their annotated locations for NP_001014167.1

      Status: PROVISIONAL

      Source sequence(s)
      BC079003
      UniProtKB/Swiss-Prot
      Q6AYK9
      UniProtKB/TrEMBL
      A0A8I6A2N0, A6J7E0
      Related
      ENSRNOP00000106192.1, ENSRNOT00000170256.1
      Conserved Domains (2) summary
      cd06558
      Location:335 → 531
      crotonase-like; Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase. ...
      cd18634
      Location:56 → 105
      CD_CDY; chromodomain of the Chromodomain Y-like protein family

    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_086035.1 Reference GRCr8

      Range
      29188697..29409805 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063276581.1 → XP_063132651.1  chromodomain Y-like protein isoform X8

    2. XM_039095879.2 → XP_038951807.1  chromodomain Y-like protein isoform X3

      UniProtKB/TrEMBL
      A0A8I6A2N0
      Conserved Domains (2) summary
      cd06558
      Location:338 → 534
      crotonase-like; Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase. ...
      cd18634
      Location:30 → 80
      CD_CDY; chromodomain of the Chromodomain Y-like protein family

    3. XM_017600600.2 → XP_017456089.1  chromodomain Y-like protein isoform X1

      UniProtKB/TrEMBL
      A0A8I6A2N0, A0A8L2QNJ4
      Related
      ENSRNOP00000048651.4, ENSRNOT00000048757.5

    4. XM_039095881.2 → XP_038951809.1  chromodomain Y-like protein isoform X9

      UniProtKB/TrEMBL
      A0A8I6G6F9
      Conserved Domains (2) summary
      cd06558
      Location:287 → 483
      crotonase-like; Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase. ...
      cd18634
      Location:6 → 57
      CD_CDY; chromodomain of the Chromodomain Y-like protein family

    5. XM_063276580.1 → XP_063132650.1  chromodomain Y-like protein isoform X7

      UniProtKB/TrEMBL
      A0A8I6G3K3
      Related
      ENSRNOP00000095115.2, ENSRNOT00000100703.2

    6. XM_039095882.2 → XP_038951810.1  chromodomain Y-like protein isoform X12

      Conserved Domains (1) summary
      cd06558
      Location:55 → 251
      crotonase-like; Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase. ...

    7. XM_006253839.5 → XP_006253901.1  chromodomain Y-like protein isoform X5

      UniProtKB/TrEMBL
      A0A8I6G6F9
      Related
      ENSRNOP00000080331.2, ENSRNOT00000119808.2
      Conserved Domains (2) summary
      cd06558
      Location:315 → 511
      crotonase-like; Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase. ...
      smart00298
      Location:7 → 60
      CHROMO; Chromatin organization modifier domain

    8. XM_017600601.3 → XP_017456090.1  chromodomain Y-like protein isoform X2

      UniProtKB/TrEMBL
      A0A8I6G6F9

    9. XM_039095880.2 → XP_038951808.1  chromodomain Y-like protein isoform X4

      UniProtKB/TrEMBL
      A0A8I6G6F9
      Conserved Domains (2) summary
      cd06558
      Location:335 → 531
      crotonase-like; Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase. ...
      cd18634
      Location:28 → 77
      CD_CDY; chromodomain of the Chromodomain Y-like protein family

    10. XM_063276582.1 → XP_063132652.1  chromodomain Y-like protein isoform X10

      UniProtKB/TrEMBL
      A0A8I5ZLF2
      Related
      ENSRNOP00000078650.2, ENSRNOT00000106207.2

    11. XM_006253840.5 → XP_006253902.1  chromodomain Y-like protein isoform X6

      UniProtKB/TrEMBL
      A0A8I6G6F9
      Conserved Domains (2) summary
      cd06558
      Location:314 → 510
      crotonase-like; Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase. ...
      smart00298
      Location:7 → 59
      CHROMO; Chromatin organization modifier domain

    12. XM_063276583.1 → XP_063132653.1  chromodomain Y-like protein isoform X11

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6AYK9.1 GenPept UniProtKB/Swiss-Prot:Q6AYK9

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools