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

Gene ID: 20492, updated on 8-Dec-2022

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 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
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Genomic context

See Slbp in Genome Data Viewer
Location:
5; 5 B2
Exon count:
8
Annotation release Status Assembly Chr Location
109 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 predicted gene 9903 Neighboring gene transmembrane protein 129 Neighboring gene transforming, acidic coiled-coil containing protein 3 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

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
PubMed 
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
PubMed 
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
PubMed 
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
PubMed 
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
PubMed 
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
PubMed 
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

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_001289724.1NP_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
    A0A8C6HPW9, 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
    A0A8C6HNJ0, 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: 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_000071.7 Reference GRCm39 C57BL/6J

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