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

    Gene ID: 20823, updated on 5-Aug-2018

    Summary

    Official Symbol
    Ssbprovided by MGI
    Official Full Name
    Sjogren syndrome antigen Bprovided by MGI
    Primary source
    MGI:MGI:98423
    See related
    Ensembl:ENSMUSG00000068882 Vega:OTTMUSG00000013038
    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-B
    Expression
    Biased expression in CNS E11.5 (RPKM 93.7), liver E14 (RPKM 50.9) and 11 other tissues See more
    Orthologs

    Genomic context

    See Ssb in Genome Data Viewer
    Location:
    2 C2; 2 40.95 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 2 NC_000068.7 (69861562..69871846)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 2 NC_000068.6 (69699619..69709903)

    Chromosome 2 - NC_000068.7Genomic 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 Neighboring gene predicted gene, 46744

    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)

    Pathways from BioSystems

    • Systemic lupus erythematosus, organism-specific biosystem (from KEGG)
      Systemic lupus erythematosus, organism-specific biosystemSystemic lupus erythematosus (SLE) is a prototypic autoimmune disease characterised by the production of IgG autoantibodies that are specific for self-antigens, such as DNA, nuclear proteins and cert...
    • Systemic lupus erythematosus, conserved biosystem (from KEGG)
      Systemic lupus erythematosus, conserved biosystemSystemic lupus erythematosus (SLE) is a prototypic autoimmune disease characterised by the production of IgG autoantibodies that are specific for self-antigens, such as DNA, nuclear proteins and cert...
    • mRNA processing, organism-specific biosystem (from WikiPathways)
      mRNA processing, organism-specific biosystemAdapted from Reactome, see: [http://www.reactome.org/cgi-bin/eventbrowser_st_id?ST_ID=REACT_1675.1 REACT 1675.1] This process describes the conversion of precursor messenger RNA into mature messenge...

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

    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
      ENSMUSP00000088365.4, OTTMUSP00000014043, ENSMUST00000090852.10, OTTMUST00000031436
      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
      pfam08777
      Location:230333
      RRM_3; RNA binding motif
    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
      ENSMUSP00000130313.1, ENSMUST00000166411.7
      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 106

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000068.7 Reference GRCm38.p4 C57BL/6J

      Range
      69861562..69871846
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006499069.2XP_006499132.1  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
      pfam08777
      Location:230333
      RRM_3; RNA binding motif
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