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    Rlig1 RNA 5'-phosphate and 3'-OH ligase 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 314788, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Rlig1provided by RGD
    Official Full Name
    RNA 5'-phosphate and 3'-OH ligase 1provided by RGD
    Primary source
    RGD:1307947
    See related
    EnsemblRapid:ENSRNOG00000006973 AllianceGenome:RGD:1307947
    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
    Also known as
    Rnl; RGD1307947
    Summary
    Predicted to enable RNA ligase (ATP) activity. Predicted to be involved in response to reactive oxygen species. Predicted to act upstream of or within hematopoietic progenitor cell differentiation. Orthologous to human RLIG1 (RNA 5'-phosphate and 3'-OH ligase 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 90.1), Muscle (RPKM 58.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rlig1 in Genome Data Viewer
    Location:
    7q21
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (37284545..37295858, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (35396876..35408633, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (40304964..40315408, complement)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene transmembrane O-mannosyltransferase targeting cadherins 3 Neighboring gene centrosomal protein 290 Neighboring gene transfer RNA proline (anticodon GGG) 7 Neighboring gene uncharacterized LOC134479675 Neighboring gene similar to human chromosome 12 open reading frame 50 Neighboring gene ribosomal protein S13, pseudogene 9

    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. Haploinsufficiency of SAMD9L, an endosome fusion facilitator, causes myeloid malignancies in mice mimicking human diseases with monosomy 7. Nagamachi A, et al. Cancer Cell, 2013 Sep 9. PMID 24029230
    2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, 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 RNA ligase (ATP) activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA ligase (ATP) activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within hematopoietic progenitor cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in response to reactive oxygen species IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in response to reactive oxygen species ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    RNA ligase 1
    Names
    RNA ligase
    uncharacterized protein C12orf29 homolog
    NP_001014105.2
    XP_038935023.1
    XP_038935024.1
    XP_038935025.1
    XP_038935026.1
    XP_038935028.1

    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_001014083.2 → NP_001014105.2  RNA ligase 1

      See identical proteins and their annotated locations for NP_001014105.2

      Status: VALIDATED

      Source sequence(s)
      CB733499, CK475399, CK478081, JAXUCZ010000007
      UniProtKB/Swiss-Prot
      Q6AXM9
      UniProtKB/TrEMBL
      A0A8I6AF89
      Related
      ENSRNOP00000071985.2, ENSRNOT00000091319.3
      Conserved Domains (1) summary
      pfam17720
      Location:1 → 324
      DUF5565; Family of unknown function (DUF5565)

    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_086025.1 Reference GRCr8

      Range
      37284545..37295858 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039079098.2 → XP_038935026.1  RNA ligase 1 isoform X2

      Conserved Domains (1) summary
      pfam17720
      Location:70 → 270
      DUF5565; Family of unknown function (DUF5565)

    2. XM_039079096.2 → XP_038935024.1  RNA ligase 1 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZTG3, A0A8I6AF89
      Related
      ENSRNOP00000105940.1, ENSRNOT00000158247.1
      Conserved Domains (1) summary
      pfam17720
      Location:5 → 299
      DUF5565; Family of unknown function (DUF5565)

    3. XM_039079095.2 → XP_038935023.1  RNA ligase 1 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZTG3, A0A8I6AF89
      Conserved Domains (1) summary
      pfam17720
      Location:5 → 299
      DUF5565; Family of unknown function (DUF5565)

    4. XM_039079097.2 → XP_038935025.1  RNA ligase 1 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZTG3, A0A8I6AF89
      Related
      ENSRNOP00000092322.1, ENSRNOT00000101415.2
      Conserved Domains (1) summary
      pfam17720
      Location:5 → 299
      DUF5565; Family of unknown function (DUF5565)

    5. XM_039079100.2 → XP_038935028.1  RNA ligase 1 isoform X3

      Conserved Domains (1) summary
      pfam17720
      Location:70 → 210
      DUF5565; Family of unknown function (DUF5565)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6AXM9.2 GenPept UniProtKB/Swiss-Prot:Q6AXM9

    Gene LinkOut

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

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