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    Ssb Sjogren syndrome antigen B [ Mus musculus (house mouse) ]

    Gene ID: 20823, updated on 23-Jun-2021

    Summary

    Official Symbol
    Ssbprovided by MGI
    Official Full Name
    Sjogren syndrome antigen Bprovided by MGI
    Primary source
    MGI:MGI:98423
    See related
    Ensembl:ENSMUSG00000068882
    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
    SS; SS-B
    Expression
    Biased expression in CNS E11.5 (RPKM 93.7), liver E14 (RPKM 50.9) and 11 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Ssb in Genome Data Viewer
    Location:
    2 C2; 2 40.95 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (69691898..69702190)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (69861562..69871846)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 2 NC_000068.6 (69699619..69709903)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene predicted gene, 39841 Neighboring gene kelch-like 23 Neighboring gene methyltransferase like 5 Neighboring gene ubiquitin protein ligase E3 component n-recognin 3 Neighboring gene myosin IIIB

    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 Functions

    What's a GeneRIF?

    Variation

    Alleles

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

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • MGC118101

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables poly(U) RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables sequence-specific mRNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables tRNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in IRES-dependent viral translational initiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in RNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in nuclear histone mRNA catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein localization to cytoplasmic stress granule ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in tRNA 3'-end processing ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in tRNA 5'-leader removal ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in tRNA export from nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in tRNA processing ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    part_of ribonucleoprotein complex IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    lupus La protein homolog
    Names
    La protein
    Lupus LA protein homolog (LA ribonucleoprotein) (LA autoantigen homolog)
    autoantigen La
    la autoantigen homolog
    la ribonucleoprotein

    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_001110145.1NP_001103615.1  lupus La protein homolog isoform a

      See identical proteins and their annotated locations for NP_001103615.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same isoform (a).
      Source sequence(s)
      AL845261, AL929249, BX322634
      Consensus CDS
      CCDS16101.1
      UniProtKB/Swiss-Prot
      P32067
      UniProtKB/TrEMBL
      Q564E6
      Related
      ENSMUSP00000088365.5, ENSMUST00000090852.11
      Conserved Domains (3) summary
      cd08028
      Location:1091
      LARP_3; La RNA-binding domain of La-related protein 3
      cd12291
      Location:112183
      RRM1_La; RNA recognition motif 1 in La autoantigen (La or LARP3) and similar proteins
      pfam08777
      Location:230333
      RRM_3; RNA binding motif
    2. NM_001355265.1NP_001342194.1  lupus La protein homolog isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and uses an alternate in-frame splice junction in the 3' end compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is 1 aa shorter compared to isoform a.
      Source sequence(s)
      AL845261, AL929249, BX322634
      Conserved Domains (3) summary
      cd08028
      Location:1091
      LARP_3; La RNA-binding domain of La-related protein 3
      cd12291
      Location:112183
      RRM1_La; RNA recognition motif 1 in La autoantigen (La or LARP3) and similar proteins
      cd12541
      Location:230306
      RRM2_La; RNA recognition motif 2 in La autoantigen (La or LARP3) and similar proteins
    3. NM_009278.4NP_033304.1  lupus La protein homolog isoform a

      See identical proteins and their annotated locations for NP_033304.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a). Variants 1 and 2 both encode the same isoform (a).
      Source sequence(s)
      AL845261, AL929249, BX322634
      Consensus CDS
      CCDS16101.1
      UniProtKB/Swiss-Prot
      P32067
      UniProtKB/TrEMBL
      Q564E6
      Related
      ENSMUSP00000130313.2, ENSMUST00000166411.8
      Conserved Domains (3) summary
      cd08028
      Location:1091
      LARP_3; La RNA-binding domain of La-related protein 3
      cd12291
      Location:112183
      RRM1_La; RNA recognition motif 1 in La autoantigen (La or LARP3) and similar proteins
      pfam08777
      Location:230333
      RRM_3; RNA binding motif

    RNA

    1. NR_149321.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR and lacks an alternate exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK017822, AL845261, AL929249

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000068.8 Reference GRCm39 C57BL/6J

      Range
      69691898..69702190
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036160091.1XP_036015984.1  lupus La protein homolog isoform X1

      Conserved Domains (3) summary
      cd08028
      Location:1091
      LARP_3; La RNA-binding domain of La-related protein 3
      cd12291
      Location:112183
      RRM1_La; RNA recognition motif 1 in La autoantigen (La or LARP3) and similar proteins
      cd12541
      Location:230306
      RRM2_La; RNA recognition motif 2 in La autoantigen (La or LARP3) and similar proteins
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