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    Cdkal1 CDK5 regulatory subunit associated protein 1-like 1 [ Mus musculus (house mouse) ]

    Gene ID: 68916, updated on 24-Feb-2019

    Summary

    Official Symbol
    Cdkal1provided by MGI
    Official Full Name
    CDK5 regulatory subunit associated protein 1-like 1provided by MGI
    Primary source
    MGI:MGI:1921765
    See related
    Ensembl:ENSMUSG00000006191
    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
    1190005B03Rik; 6620401C13Rik
    Expression
    Ubiquitous expression in testis adult (RPKM 1.1), bladder adult (RPKM 0.6) and 25 other tissues See more
    Orthologs

    Genomic context

    See Cdkal1 in Genome Data Viewer
    Location:
    13; 13 A3.1-A3.2
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 13 NC_000079.6 (29191746..29855684, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 13 NC_000079.5 (29417175..29947457, complement)

    Chromosome 13 - NC_000079.6Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA A330102I10 gene Neighboring gene predicted gene, 46405 Neighboring gene SRY (sex determining region Y)-box 4 Neighboring gene E2F transcription factor 3 Neighboring gene predicted gene, 40860

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    4 iron, 4 sulfur cluster binding IEA
    Inferred from Electronic Annotation
    more info
     
    N6-threonylcarbomyladenosine methylthiotransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    N6-threonylcarbomyladenosine methylthiotransferase activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    catalytic activity IEA
    Inferred from Electronic Annotation
    more info
     
    iron-sulfur cluster binding IEA
    Inferred from Electronic Annotation
    more info
     
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    tRNA (N(6)-L-threonylcarbamoyladenosine(37)-C(2))-methylthiotransferase IEA
    Inferred from Electronic Annotation
    more info
     
    transferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    maintenance of translational fidelity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    tRNA methylthiolation IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    tRNA methylthiolation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    tRNA modification IEA
    Inferred from Electronic Annotation
    more info
     
    tRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    endoplasmic reticulum IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    endoplasmic reticulum IDA
    Inferred from Direct Assay
    more info
    PubMed 
    integral component of membrane IEA
    Inferred from Electronic Annotation
    more info
     
    membrane IEA
    Inferred from Electronic Annotation
    more info
     
    rough endoplasmic reticulum IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    threonylcarbamoyladenosine tRNA methylthiotransferase
    Names
    tRNA-t(6)A37 methylthiotransferase
    NP_001295415.1
    NP_653119.1
    XP_006516825.1
    XP_006516826.1
    XP_006516827.1
    XP_011242644.1
    XP_017171078.1
    XP_017171079.1

    NCBI Reference Sequences (RefSeq)

    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_001308486.1NP_001295415.1  threonylcarbamoyladenosine tRNA methylthiotransferase isoform 2

      See identical proteins and their annotated locations for NP_001295415.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks multiple alternate 3' exons and contains two alternate 3' exons, compared to variant 1. The encoded isoform (2) is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AK045506, AL513025
      Consensus CDS
      CCDS84016.1
      UniProtKB/Swiss-Prot
      Q91WE6
      Related
      ENSMUSP00000089262.5, ENSMUST00000091674.11
      Conserved Domains (1) summary
      pfam00919
      Location:6494
      UPF0004; Uncharacterized protein family UPF0004
    2. NM_144536.3NP_653119.1  threonylcarbamoyladenosine tRNA methylthiotransferase isoform 1

      See identical proteins and their annotated locations for NP_653119.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AK004490, AK045506, AK082629, AL513025, AL589701, DV651111
      Consensus CDS
      CCDS26412.1
      UniProtKB/Swiss-Prot
      Q91WE6
      Related
      ENSMUSP00000006353.7, ENSMUST00000006353.13
      Conserved Domains (3) summary
      cd01335
      Location:207410
      Radical_SAM; Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster. ...
      TIGR01578
      Location:64491
      MiaB-like-B; MiaB-like tRNA modifying enzyme, archaeal-type
      pfam00919
      Location:64145
      UPF0004; Uncharacterized protein family UPF0004

    RNA

    1. NR_131896.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an alternate 3' exon and contains two alternate 3' exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK082629, AL513025
      Related
      ENSMUST00000140278.7

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000079.6 Reference GRCm38.p4 C57BL/6J

      Range
      29191746..29855684 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017315589.1XP_017171078.1  threonylcarbamoyladenosine tRNA methylthiotransferase isoform X3

      Conserved Domains (1) summary
      TIGR01578
      Location:1206
      MiaB-like-B; MiaB-like tRNA modifying enzyme, archaeal-type
    2. XM_006516763.3XP_006516826.1  threonylcarbamoyladenosine tRNA methylthiotransferase isoform X3

      See identical proteins and their annotated locations for XP_006516826.1

      Conserved Domains (1) summary
      TIGR01578
      Location:1206
      MiaB-like-B; MiaB-like tRNA modifying enzyme, archaeal-type
    3. XM_006516762.3XP_006516825.1  threonylcarbamoyladenosine tRNA methylthiotransferase isoform X2

      Conserved Domains (1) summary
      TIGR01578
      Location:8253
      MiaB-like-B; MiaB-like tRNA modifying enzyme, archaeal-type
    4. XM_017315590.1XP_017171079.1  threonylcarbamoyladenosine tRNA methylthiotransferase isoform X3

      Conserved Domains (1) summary
      TIGR01578
      Location:1206
      MiaB-like-B; MiaB-like tRNA modifying enzyme, archaeal-type
    5. XM_006516764.3XP_006516827.1  threonylcarbamoyladenosine tRNA methylthiotransferase isoform X3

      See identical proteins and their annotated locations for XP_006516827.1

      Conserved Domains (1) summary
      TIGR01578
      Location:1206
      MiaB-like-B; MiaB-like tRNA modifying enzyme, archaeal-type
    6. XM_011244342.2XP_011242644.1  threonylcarbamoyladenosine tRNA methylthiotransferase isoform X1

      Conserved Domains (3) summary
      cd01335
      Location:207410
      Radical_SAM; Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster. ...
      smart00729
      Location:206408
      Elp3; Elongator protein 3, MiaB family, Radical SAM
      pfam00919
      Location:64145
      UPF0004; Uncharacterized protein family UPF0004
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