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    Slbp stem-loop histone mRNA binding protein [ Rattus norvegicus (Norway rat) ]

    Gene ID: 681062, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Slbpprovided by RGD
    Official Full Name
    stem-loop histone mRNA binding proteinprovided by RGD
    Primary source
    RGD:1584682
    See related
    EnsemblRapid:ENSRNOG00000037162 AllianceGenome:RGD:1584682
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable histone pre-mRNA stem-loop binding activity; identical protein binding activity; and mRNA binding activity. Predicted to be involved in cap-dependent translational initiation; mRNA 3'-end processing by stem-loop binding activity and cleavage; and mRNA transport. Predicted to be located in cytosol; nucleolus; and nucleoplasm. Predicted to be part of histone mRNA stem-loop binding activity complex and histone pre-mRNA 3'end processing complex. Predicted to be active in cytoplasm. Orthologous to human SLBP (stem-loop histone mRNA binding protein). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Biased expression in Thymus (RPKM 481.9), Spleen (RPKM 437.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Slbp in Genome Data Viewer
    Location:
    14q21
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (81295479..81306446)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (77071441..77081911)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (82356916..82366368)

    Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA18 Neighboring gene transforming, acidic coiled-coil containing protein 3 Neighboring gene transmembrane protein 129, E3 ubiquitin ligase Neighboring gene family with sequence similarity 53, member A Neighboring gene proteasome 20S subunit beta 3, pseudogene 5

    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 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. Knockdown of SLBP results in nuclear retention of histone mRNA. Sullivan KD, et al. RNA, 2009 Mar. PMID 19155325, Free PMC Article
    2. 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
    3. Nuclear import of the stem-loop binding protein and localization during the cell cycle. Erkmann JA, et al. Mol Biol Cell, 2005 Jun. PMID 15829567, Free PMC Article
    4. Characterization of 3'hExo, a 3' exonuclease specifically interacting with the 3' end of histone mRNA. Yang XC, et al. J Biol Chem, 2006 Oct 13. PMID 16912046
    5. Assembly of the SLIP1-SLBP complex on histone mRNA requires heterodimerization and sequential binding of SLBP followed by SLIP1. Bansal N, et al. Biochemistry, 2013 Jan 22. PMID 23286197, Free PMC Article

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC187387

    Gene Ontology Provided by RGD

    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 ISO
    Inferred from Sequence Orthology
    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 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 ISO
    Inferred from Sequence Orthology
    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 ISO
    Inferred from Sequence Orthology
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of ribonucleoprotein complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    histone RNA hairpin-binding protein
    Names
    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_001130988.1 → NP_001124460.1  histone RNA hairpin-binding protein

      See identical proteins and their annotated locations for NP_001124460.1

      Status: PROVISIONAL

      Source sequence(s)
      BC167755
      UniProtKB/TrEMBL
      A0A8I6AID5, A0A9K3Y6R4, A6IK58, B3DM97, D3ZSM2
      Related
      ENSRNOP00000047799.3, ENSRNOT00000040229.5
      Conserved Domains (1) summary
      pfam15247
      Location:130 → 197
      SLBP_RNA_bind; Histone RNA hairpin-binding protein RNA-binding domain

    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_086032.1 Reference GRCr8

      Range
      81295479..81306446
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039092440.2 → XP_038948368.1  histone RNA hairpin-binding protein isoform X1

      UniProtKB/TrEMBL
      A0A8I6AID5, A6IK58, A6IK59
      Conserved Domains (1) summary
      pfam15247
      Location:95 → 163
      SLBP_RNA_bind; Histone RNA hairpin-binding protein RNA-binding domain
    Nucleotide Protein Strain
    Heading Accession and Version

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