slbp stem-loop histone mRNA binding protein [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: slbpprovided by ZNC
Official Full Name: stem-loop histone mRNA binding proteinprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-9686
See related: Ensembl:ENSDARG00000100558 AllianceGenome:ZFIN:ZDB-GENE-030131-9686
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: ele; cb157; slbp1; sb:cb157; si:dkey-102m7.2
Summary: Predicted to enable histone pre-mRNA stem-loop binding activity and mRNA binding activity. Acts upstream of or within nervous system development and neural retina development. Predicted to be part of histone pre-mRNA 3'end processing complex. Predicted to be active in cytoplasm. Is expressed in several structures, including digestive system; immature eye; musculature system; nervous system; and pleuroperitoneal region. Orthologous to human SLBP (stem-loop histone mRNA binding protein). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 14

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	14	NC_007125.7 (14841694..14846169)
105	previous assembly	GRCz10 (GCF_000002035.5)	14	NC_007125.6 (14536131..14540606)

Chromosome 14 - NC_007125.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

These results suggest that many of the cell and tissue specific phenotypes in ele mutant embryos are secondary to altered expression of modules of developmental regulatory genes that characterise, or promote transitions in, cell state and require the correct function of Slbp-dependent histone and chromatin regulatory genes.
Title: Abrogation of Stem Loop Binding Protein (Slbp) function leads to a failure of cells to transition from proliferation to differentiation, retinal coloboma and midline axon guidance deficits.

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables mRNA binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within brain morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neural retina development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neuron differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within photoreceptor cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within retinal ganglion cell axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed

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)

NM_001256193.1 → NP_001243122.1 histone RNA hairpin-binding protein isoform 1

Status: VALIDATED

Description

Transcript Variant: This variant represents the longer transcript and encodes the longer protein (isoform 1).

Source sequence(s)

BX323828, EH496507, EH578014

UniProtKB/TrEMBL

A0A8M1P3D7, Q7SXI8

Related

ENSDARP00000140437.1, ENSDART00000158291.2

Conserved Domains (1) summary

pfam15247
Location:135 → 202

SLBP_RNA_bind; Histone RNA hairpin-binding protein RNA-binding domain
NM_001256194.1 → NP_001243123.1 histone RNA hairpin-binding protein isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an alternate exon in the coding region compared to variant 1. The resulting protein (isoform 2) is shorter but has the same N- and C-termini compared to isoform 1.

Source sequence(s)

BX323828, EH543353

UniProtKB/TrEMBL

A0A8M1NZD7, Q7SXI8

Related

ENSDARP00000141903.1, ENSDART00000162039.2

Conserved Domains (1) summary

pfam15247
Location:100 → 167

SLBP_RNA_bind; Histone RNA hairpin-binding protein RNA-binding domain