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SLBP stem-loop binding protein [ Homo sapiens (human) ]

Gene ID: 7884, updated on 8-May-2016
Official Symbol
SLBPprovided by HGNC
Official Full Name
stem-loop binding proteinprovided by HGNC
Primary source
HGNC:HGNC:10904
See related
Ensembl:ENSG00000163950 HPRD:03884; MIM:602422; Vega:OTTHUMG00000089349
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
HBP
Summary
This gene encodes a protein that binds to the stem-loop structure in replication-dependent histone mRNAs. Histone mRNAs do not contain introns or polyadenylation signals, and are processed by endonucleolytic cleavage. The stem-loop structure is essential for efficient processing but this structure also controls the transport, translation and stability of histone mRNAs. Expression of the protein is regulated during the cell cycle, increasing more than 10-fold during the latter part of G1. [provided by RefSeq, Jul 2008]
Orthologs
Location:
4p16.3
Exon count:
8
Annotation release Status Assembly Chr Location
107 current GRCh38.p2 (GCF_000001405.28) 4 NC_000004.12 (1692800..1712694, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (1694527..1714421, complement)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene family with sequence similarity 53 member A Neighboring gene uncharacterized LOC105374350 Neighboring gene uncharacterized LOC105374349 Neighboring gene transmembrane protein 129 Neighboring gene transforming acidic coiled-coil containing protein 3

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

NHGRI GWAS Catalog

Description
A sequence variant at 4p16.3 confers susceptibility to urinary bladder cancer.
NHGRI GWA Catalog
Hundreds of variants clustered in genomic loci and biological pathways affect human height.
NHGRI GWA Catalog
Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
histone pre-mRNA DCP binding ISS
Inferred from Sequence or Structural Similarity
more info
 
histone pre-mRNA stem-loop binding ISS
Inferred from Sequence or Structural Similarity
more info
 
mRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
poly(A) RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
histone mRNA metabolic process TAS
Traceable Author Statement
more info
 
mRNA 3'-end processing by stem-loop binding and cleavage ISS
Inferred from Sequence or Structural Similarity
more info
 
mRNA export from nucleus TAS
Traceable Author Statement
more info
 
mRNA transport IDA
Inferred from Direct Assay
more info
PubMed 
nuclear DNA replication IMP
Inferred from Mutant Phenotype
more info
PubMed 
termination of RNA polymerase II transcription TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
histone pre-mRNA 3'end processing complex ISS
Inferred from Sequence or Structural Similarity
more info
 
intracellular ribonucleoprotein complex TAS
Traceable Author Statement
more info
PubMed 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
Preferred Names
histone RNA hairpin-binding protein
Names
hairpin binding protein, histone
histone binding protein
histone stem-loop binding protein
histone stem-loop-binding protein
stem-loop (histone) binding protein

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_001306074.1NP_001293003.1  histone RNA hairpin-binding protein isoform 2

    See identical proteins and their annotated locations for NP_001293003.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. It encodes isoform 2, which is shorter than isoform 1.
    Source sequence(s)
    AK094257, AK300826, BM976632, DA064026, DB027411, DB031118, DC383752, Z71188
    Consensus CDS
    CCDS77889.1
    UniProtKB/Swiss-Prot
    Q14493
    UniProtKB/TrEMBL
    B3KST9, B4DUW7, E7EUV9
    Conserved Domains (1) summary
    pfam15247
    Location:93165
    SLBP_RNA_bind; Histone RNA hairpin-binding protein RNA-binding domain
  2. NM_001306075.1NP_001293004.1  histone RNA hairpin-binding protein isoform 3

    See identical proteins and their annotated locations for NP_001293004.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame exon in the 5' coding region compared to variant 1. It encodes isoform 3, which is shorter than isoform 1.
    Source sequence(s)
    AK091735, AK094257, BM976632, DA064026, DC383752
    UniProtKB/Swiss-Prot
    Q14493
    UniProtKB/TrEMBL
    B3KST9
    Conserved Domains (1) summary
    pfam15247
    Location:89161
    SLBP_RNA_bind; Histone RNA hairpin-binding protein RNA-binding domain
  3. NM_006527.3NP_006518.1  histone RNA hairpin-binding protein isoform 1

    See identical proteins and their annotated locations for NP_006518.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AK093314, AK094257, BM976632, DA064026, DC383752, U75679
    Consensus CDS
    CCDS3350.1
    UniProtKB/Swiss-Prot
    Q14493
    UniProtKB/TrEMBL
    B3KSC5, B3KST9, Q53XR2
    Related
    ENSP00000417686, OTTHUMP00000113498, ENST00000489418, OTTHUMT00000203176
    Conserved Domains (1) summary
    pfam15247
    Location:128200
    SLBP_RNA_bind; Histone RNA hairpin-binding protein RNA-binding domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 107 details...

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

Reference GRCh38.p2 Primary Assembly

Genomic

  1. NC_000004.12 Reference GRCh38.p2 Primary Assembly

    Range
    1692800..1712694 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011513564.1XP_011511866.1  

    Related
    ENSP00000418658, OTTHUMP00000216798, ENST00000488267, OTTHUMT00000357832
    Conserved Domains (1) summary
    pfam15247
    Location:93165
    SLBP_RNA_bind; Histone RNA hairpin-binding protein RNA-binding domain

Alternate CHM1_1.1

Genomic

  1. NC_018915.2 Alternate CHM1_1.1

    Range
    1692305..1711989 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)