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    Rtcb RNA 2',3'-cyclic phosphate and 5'-OH ligase [ Mus musculus (house mouse) ]

    Gene ID: 28088, updated on 2-Nov-2024

    Summary

    Official Symbol
    Rtcbprovided by MGI
    Official Full Name
    RNA 2',3'-cyclic phosphate and 5'-OH ligaseprovided by MGI
    Primary source
    MGI:MGI:106379
    See related
    Ensembl:ENSMUSG00000001783 AllianceGenome:MGI:106379
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    FAAP; HSPC117; D10Wsu52e
    Summary
    Predicted to enable RNA ligase (ATP) activity; RNA ligase (GTP) activity; and vinculin binding activity. Acts upstream of or within in utero embryonic development and placenta development. Located in endoplasmic reticulum membrane and nuclear envelope. Is expressed in several structures, including early conceptus; gonad; heart; liver; and placenta. Orthologous to human RTCB (RNA 2',3'-cyclic phosphate and 5'-OH ligase). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in genital fat pad adult (RPKM 77.2), CNS E11.5 (RPKM 72.6) and 28 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Rtcb in Genome Data Viewer
    Location:
    10 C1; 10 41.81 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (85774501..85793657, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (85938637..85957793, complement)

    Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene PR domain containing 4 Neighboring gene STARR-positive B cell enhancer ABC_E723 Neighboring gene achaete-scute family bHLH transcription factor 4 Neighboring gene STARR-seq mESC enhancer starr_27454 Neighboring gene STARR-positive B cell enhancer ABC_E11450 Neighboring gene predicted gene, 48175 Neighboring gene BPI fold containing family C Neighboring gene STARR-seq mESC enhancer starr_27455 Neighboring gene STARR-positive B cell enhancer ABC_E8355 Neighboring gene F-box protein 7 Neighboring gene predicted gene, 24430

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data 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

    Related articles in PubMed

    GeneRIFs: Gene References Into Functions

    What'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

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables GTP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA ligase (ATP) activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables RNA ligase (GTP) activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables vinculin binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables vinculin binding ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in endoplasmic reticulum membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nuclear envelope IDA
    Inferred from Direct Assay
    more info
    PubMed 
    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 nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    part_of tRNA-splicing ligase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of tRNA-splicing ligase complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of tRNA-splicing ligase complex ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    RNA-splicing ligase RtcB homolog
    Names
    3'-phosphate/5'-hydroxy nucleic acid ligase
    focal adhesion-associated protein
    tRNA-splicing ligase RtcB homolog
    NP_663397.1

    NCBI Reference Sequences (RefSeq)

    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_145422.4NP_663397.1  RNA-splicing ligase RtcB homolog

      See identical proteins and their annotated locations for NP_663397.1

      Status: PROVISIONAL

      Source sequence(s)
      AC122919, AC151901
      Consensus CDS
      CCDS24094.1
      UniProtKB/Swiss-Prot
      Q3TA04, Q3TI25, Q3UDW6, Q99LF4
      UniProtKB/TrEMBL
      Q3TJ01
      Related
      ENSMUSP00000001834.4, ENSMUST00000001834.4
      Conserved Domains (1) summary
      pfam01139
      Location:68505
      RtcB; tRNA-splicing ligase RtcB

    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_000076.7 Reference GRCm39 C57BL/6J

      Range
      85774501..85793657 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)