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    Slbp stem-loop binding protein [ Mus musculus (house mouse) ]

    Gene ID: 20492, updated on 9-Dec-2024

    Summary

    Official Symbol
    Slbpprovided by MGI
    Official Full Name
    stem-loop binding proteinprovided by MGI
    Primary source
    MGI:MGI:108402
    See related
    Ensembl:ENSMUSG00000004642 AllianceGenome:MGI:108402
    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
    Summary
    Enables histone pre-mRNA stem-loop binding activity and mRNA binding activity. Involved in mRNA 3'-end processing by stem-loop binding activity and cleavage. Located in cytoplasm and nucleus. Part of histone pre-mRNA 3'end processing complex. Is expressed in several structures, including brain; early conceptus; genitourinary system; hemolymphoid system gland; and pancreas. Orthologous to human SLBP (stem-loop histone mRNA binding protein). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in liver E14 (RPKM 77.2), liver E14.5 (RPKM 59.0) and 21 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Slbp in Genome Data Viewer
    Location:
    5 B2; 5 17.83 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (33797399..33809918, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (33640055..33652574, complement)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene family with sequence similarity 53, member A Neighboring gene STARR-positive B cell enhancer ABC_E6317 Neighboring gene predicted gene 9903 Neighboring gene STARR-positive B cell enhancer ABC_E6318 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:34000710-34000897 Neighboring gene predicted gene 10459 Neighboring gene transmembrane protein 129 Neighboring gene transforming, acidic coiled-coil containing protein 3 Neighboring gene STARR-seq mESC enhancer starr_12827 Neighboring gene Fgfr3 5' regulatory region Neighboring gene fibroblast growth factor receptor 3

    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)
    • Targeted (1) 

    Pathways from PubChem

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables histone pre-mRNA stem-loop binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables histone pre-mRNA stem-loop binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables identical protein binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables mRNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in cap-dependent translational initiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in mRNA 3'-end processing by stem-loop binding and cleavage IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in mRNA 3'-end processing by stem-loop binding and cleavage IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in mRNA transport IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in mRNA transport ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in mRNA transport ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in cytoplasm NAS
    Non-traceable Author Statement
    more info
    PubMed 
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    part_of histone mRNA stem-loop binding complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of histone pre-mRNA 3'end processing complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of histone pre-mRNA 3'end processing complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm 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
     
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    part_of ribonucleoprotein complex IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    histone RNA hairpin-binding protein
    Names
    histone stem-loop-binding protein

    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_001289724.1NP_001276653.1  histone RNA hairpin-binding protein isoform 2

      See identical proteins and their annotated locations for NP_001276653.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AC132233, AC162898, AK162121, BE979466
      Consensus CDS
      CCDS80257.1
      UniProtKB/TrEMBL
      Q3TSD8, Q8K2W7
      Related
      ENSMUSP00000098906.4, ENSMUST00000101354.10
      Conserved Domains (1) summary
      pfam15247
      Location:110177
      SLBP_RNA_bind; Histone RNA hairpin-binding protein RNA-binding domain
    2. NM_001289725.1NP_001276654.1  histone RNA hairpin-binding protein isoform 3

      See identical proteins and their annotated locations for NP_001276654.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an alternate in-frame exon, compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
      Source sequence(s)
      AC132233, AC162898, AK162121, BE979466
      UniProtKB/TrEMBL
      Q3TSD8
      Conserved Domains (1) summary
      pfam15247
      Location:95162
      SLBP_RNA_bind; Histone RNA hairpin-binding protein RNA-binding domain
    3. NM_009193.2NP_033219.1  histone RNA hairpin-binding protein isoform 1

      See identical proteins and their annotated locations for NP_033219.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AC132233, AC162898, AK162121, BE979466
      Consensus CDS
      CCDS19205.1
      UniProtKB/Swiss-Prot
      P97440
      UniProtKB/TrEMBL
      Q3TSD8, Q3U4T7
      Related
      ENSMUSP00000062930.8, ENSMUST00000057551.14
      Conserved Domains (1) summary
      pfam15247
      Location:130197
      SLBP_RNA_bind; Histone RNA hairpin-binding protein RNA-binding domain

    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_000071.7 Reference GRCm39 C57BL/6J

      Range
      33797399..33809918 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)