ssb small RNA binding exonuclease protection factor La [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: ssbprovided by ZNC
Official Full Name: small RNA binding exonuclease protection factor Laprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-223
See related: Ensembl:ENSDARG00000029252 AllianceGenome:ZFIN:ZDB-GENE-030131-223
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: zgc:55588; wu:fb17f11
Summary: Predicted to enable mRNA binding activity. Predicted to be involved in positive regulation of translation and tRNA processing. Predicted to act upstream of or within RNA processing. Predicted to be part of ribonucleoprotein complex. Predicted to be active in cytoplasmic stress granule; cytosol; and nucleus. Is expressed in several structures, including digestive system; immature eye; mesoderm; musculature system; and nervous system. Orthologous to human SSB (small RNA binding exonuclease protection factor La). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 6

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	6	NC_007117.7 (3715497..3728632)
105	previous assembly	GRCz10 (GCF_000002035.5)	6	NC_007117.6 (3552595..3567812)

Chromosome 6 - NC_007117.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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?

Submit: New GeneRIF Correction

General gene information

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Markers

AI384191 (e-PCR)
- UniSTS:206741

fb17f11.x1 (e-PCR)
- UniSTS:202989

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables nucleic acid binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within RNA processing	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of translation	IBA Inferred from Biological aspect of Ancestor more info
involved_in tRNA processing	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in cytoplasmic stress granule	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of ribonucleoprotein complex	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: lupus La protein

Names: Sjogren syndrome antigen B (autoantigen La)

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_199547.1 → NP_955841.1 lupus La protein

See identical proteins and their annotated locations for NP_955841.1

Status: PROVISIONAL

Source sequence(s)

BC045392

UniProtKB/TrEMBL

A0A8N7XJ07, B2GRX6, F6NWT8, Q7ZTI0

Related

ENSDARP00000041626.5, ENSDART00000041627.5

Conserved Domains (3) summary

cd08028
Location:7 → 88

LARP_3; La RNA-binding domain of La-related protein 3

cd12291
Location:109 → 181

RRM1_La; RNA recognition motif 1 in La autoantigen (La or LARP3) and similar proteins

pfam08777
Location:229 → 326

RRM_3; RNA binding motif

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

NC_007117.7 Reference GRCz11 Primary Assembly

Range

3715497..3728632

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005172073.5 → XP_005172130.1 lupus La protein isoform X1

See identical proteins and their annotated locations for XP_005172130.1

UniProtKB/TrEMBL

A0A8N7XJ07, B2GRX6, F6NWT8, Q7ZTI0

Conserved Domains (3) summary

cd08028
Location:7 → 88

LARP_3; La RNA-binding domain of La-related protein 3

cd12291
Location:109 → 181

RRM1_La; RNA recognition motif 1 in La autoantigen (La or LARP3) and similar proteins

pfam08777
Location:229 → 326

RRM_3; RNA binding motif
XM_009302102.4 → XP_009300377.1 lupus La protein isoform X1

See identical proteins and their annotated locations for XP_009300377.1

UniProtKB/TrEMBL

A0A8N7XJ07, B2GRX6, F6NWT8, Q7ZTI0

Conserved Domains (3) summary

cd08028
Location:7 → 88

LARP_3; La RNA-binding domain of La-related protein 3

cd12291
Location:109 → 181

RRM1_La; RNA recognition motif 1 in La autoantigen (La or LARP3) and similar proteins

pfam08777
Location:229 → 326

RRM_3; RNA binding motif