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

    Gene ID: 20492, updated on 5-Mar-2024

    Summary

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    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 ventricular layer; early conceptus; oocyte; pancreas tip epithelium; and vertebral axis musculature. Orthologous to human SLBP (stem-loop binding protein). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in liver E14 (RPKM 77.2), liver E14.5 (RPKM 59.0) and 21 other tissues See more
    Orthologs
    human all
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    Genomic context

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    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

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Proteasomal activity is required to initiate and to sustain translational activation of messenger RNA encoding the stem-loop-binding protein during meiotic maturation in mice. Yang Q, et al. Biol Reprod, 2010 Jan. PMID 19759367, Free PMC Article
    2. Stem-loop binding protein expressed in growing oocytes is required for accumulation of mRNAs encoding histones H3 and H4 and for early embryonic development in the mouse. Arnold DR, et al. Dev Biol, 2008 Jan 1. PMID 18036581, Free PMC Article
    3. The stem-loop binding protein regulates translation of histone mRNA during mammalian oogenesis. Allard P, et al. Dev Biol, 2005 Oct 1. PMID 16125165, Free PMC Article
    4. TNF alpha-induced hepatocyte apoptosis is associated with alterations of the cell cycle and decreased stem loop binding protein. Black D, et al. Surgery, 2004 Jun. PMID 15179368
    5. SLBP is associated with histone mRNA on polyribosomes as a component of the histone mRNP. Whitfield ML, et al. Nucleic Acids Res, 2004. PMID 15358832, Free PMC Article

    See all (29) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. SLBP overexpression caused by Fbxo30 depletion results in a remarkable overload of histone H3 on chromosomes that excessively condenses chromosomes and inhibits chromosome segregation. The finding uncovers an unidentified pathway-controlling chromosome segregation and cell progress.
      Title: Fbxo30 regulates chromosome segregation of oocyte meiosis.
    2. During maturation, Slbp mRNA becomes polyadenylated and translationally activated. Proteasomal activity is required both to initiate and to sustain translational activation.
      Title: Proteasomal activity is required to initiate and to sustain translational activation of messenger RNA encoding the stem-loop-binding protein during meiotic maturation in mice.
    3. Maternally encoded Slbp is degraded in 2-cell mouse embryos by the co-ordinated activity of two separately regulated pathways.
      Title: Maternally encoded stem-loop-binding protein is degraded in 2-cell mouse embryos by the co-ordinated activity of two separately regulated pathways.
    4. SLBP is an essential component of the mechanism by which growing oocytes of the mouse accumulate the histones that support early embryonic development.
      Title: Stem-loop binding protein expressed in growing oocytes is required for accumulation of mRNAs encoding histones H3 and H4 and for early embryonic development in the mouse.
    5. histone synthesis in immature and maturing oocytes is governed by a translational control mechanism that is directly regulated by changes in the amount of SLBP
      Title: The stem-loop binding protein regulates translation of histone mRNA during mammalian oogenesis.
    6. Inhibition of NF kappa B in TNF alpha-treated primary mouse hepatocytes is associated with increased S-phase cell cycle retention and decreased stem loop binding protein.
      Title: TNF alpha-induced hepatocyte apoptosis is associated with alterations of the cell cycle and decreased stem loop binding protein.
    7. SLBP expression and activity differ in mouse oocytes and early embryos compared with somatic cells.
      Title: Stem-loop binding protein accumulates during oocyte maturation and is not cell-cycle-regulated in the early mouse embryo.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (1) 

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 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
    		  
    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 
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mRNA transport ISO
    Inferred from Sequence Orthology
    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 NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    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 ISO
    Inferred from Sequence Orthology
    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
    		  
    part_of ribonucleoprotein complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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

    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_001289724.1 → NP_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:110 → 177
      SLBP_RNA_bind; Histone RNA hairpin-binding protein RNA-binding domain

    2. NM_001289725.1 → NP_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:95 → 162
      SLBP_RNA_bind; Histone RNA hairpin-binding protein RNA-binding domain

    3. NM_009193.2 → NP_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:130 → 197
      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)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P97440.1 GenPept UniProtKB/Swiss-Prot:P97440

    Gene LinkOut

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

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