Secisbp2 SECIS binding protein 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Secisbp2provided by RGD
Official Full Name: SECIS binding protein 2provided by RGD
Primary source: RGD:620991
See related: EnsemblRapid:ENSRNOG00000013773 AllianceGenome:RGD:620991
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
Also known as: Sbp2
Summary: Enables mRNA 3'-UTR binding activity and selenocysteine insertion sequence binding activity. Involved in positive regulation of selenocysteine incorporation and selenocysteine incorporation. Predicted to be located in nucleoplasm. Predicted to be part of ribonucleoprotein complex. Predicted to be active in mitochondrion. Human ortholog(s) of this gene implicated in thyroid gland disease. Orthologous to human SECISBP2 (SECIS binding protein 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 195.3), Spleen (RPKM 117.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 17p14

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	17	NC_086035.1 (13690263..13721303, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	17	NC_051352.1 (13538513..13569573, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	17	NC_005116.4 (13555348..13586595, complement)

Chromosome 17 - NC_086035.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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Expression

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See details

Project title: 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Data show that a purified recombinant protein encompassing amino acids 517-777 of SECIS-binding protein 2 (SBP2) binds to SECIS elements with high affinity and selectivity.
Title: Characterization of the UGA-recoding and SECIS-binding activities of SECIS-binding protein 2.
L30 and SBP2 bind to overlapping but non-identical sites on the SECIS.
Title: Identification of nucleotides and amino acids that mediate the interaction between ribosomal protein L30 and the SECIS element.
SBP2/SECIS complex activates eEFSec by directing functional interactions between Domain IV and the ribosome to promote Sec-tRNA(Sec) binding and accommodation into the ribosomal A-site
Title: The selenocysteine-specific elongation factor contains a novel and multi-functional domain.
ca. 70% of the SBP2 sequence is disordered, whereas the RNA binding domain appears to be folded and functional.
Title: SECIS-binding protein 2, a key player in selenoprotein synthesis, is an intrinsically disordered protein.
The interaction of eIF4a3 with selenoprotein mRNA prevents the binding of SECIS binding protein 2, which is required for selenocysteine insertion, thereby inhibiting selenoprotein synthesis.
Title: Eukaryotic initiation factor 4a3 is a selenium-regulated RNA-binding protein that selectively inhibits selenocysteine incorporation.
CUG-BP1 and HuR act as factors that bind to the SBP2 3' UTR, which suggests that TTR-RBPs play a role in the regulation of SBP2
Title: Known turnover and translation regulatory RNA-binding proteins interact with the 3' UTR of SECIS-binding protein 2.
the differential affinity of SBP2 for various SECIS elements will determine the expression pattern of the selenoproteome
Title: Altered RNA binding activity underlies abnormal thyroid hormone metabolism linked to a mutation in selenocysteine insertion sequence-binding protein 2.
The L7Ae RNA binding motif is a multifunctional domain required for the ribosome-dependent Sec incorporation activity of Secisbp2.
Title: The L7Ae RNA binding motif is a multifunctional domain required for the ribosome-dependent Sec incorporation activity of Sec insertion sequence binding protein 2.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables mRNA 3'-UTR binding	IBA Inferred from Biological aspect of Ancestor more info
enables mRNA 3'-UTR binding	IDA Inferred from Direct Assay more info	PubMed
enables mRNA 3'-UTR binding	IEA Inferred from Electronic Annotation more info
enables mRNA 3'-UTR binding	ISO Inferred from Sequence Orthology more info
enables ribonucleoprotein complex binding	IBA Inferred from Biological aspect of Ancestor more info
enables ribonucleoprotein complex binding	IEA Inferred from Electronic Annotation more info
enables ribonucleoprotein complex binding	ISO Inferred from Sequence Orthology more info
enables selenocysteine insertion sequence binding	IBA Inferred from Biological aspect of Ancestor more info
enables selenocysteine insertion sequence binding	IDA Inferred from Direct Assay more info	PubMed
enables selenocysteine insertion sequence binding	IEA Inferred from Electronic Annotation more info
enables selenocysteine insertion sequence binding	ISO Inferred from Sequence Orthology more info
enables translation factor activity, RNA binding	TAS Traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
involved_in RNA catabolic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within RNA catabolic process	ISO Inferred from Sequence Orthology more info
involved_in forebrain neuron development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within forebrain neuron development	ISO Inferred from Sequence Orthology more info
involved_in mRNA stabilization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mRNA stabilization	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of selenocysteine incorporation	IDA Inferred from Direct Assay more info	PubMed
involved_in selenocysteine incorporation	IBA Inferred from Biological aspect of Ancestor more info
involved_in selenocysteine incorporation	IDA Inferred from Direct Assay more info	PubMed
involved_in selenocysteine incorporation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within selenocysteine incorporation	ISO Inferred from Sequence Orthology more info
involved_in selenocysteine incorporation	ISO Inferred from Sequence Orthology more info
involved_in selenocysteine incorporation	TAS Traceable Author Statement more info	PubMed
involved_in striatum development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within striatum development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within translation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytosol	TAS Traceable Author Statement more info
is_active_in mitochondrion	IBA Inferred from Biological aspect of Ancestor more info
located_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of ribonucleoprotein complex	IBA Inferred from Biological aspect of Ancestor more info
part_of ribonucleoprotein complex	IEA Inferred from Electronic Annotation more info
part_of ribonucleoprotein complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: selenocysteine insertion sequence-binding protein 2

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_024002.1 → NP_076492.1 selenocysteine insertion sequence-binding protein 2

See identical proteins and their annotated locations for NP_076492.1

Status: PROVISIONAL

Source sequence(s)

AJ251245

UniProtKB/Swiss-Prot

Q9QX72

UniProtKB/TrEMBL

A6J6T6

Conserved Domains (1) summary

pfam01248
Location:650 → 750

Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family

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

NC_086035.1 Reference GRCr8

Range

13690263..13721303 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_008771506.4 → XP_008769728.1 selenocysteine insertion sequence-binding protein 2 isoform X1

UniProtKB/TrEMBL

A6J6T6, F1LPQ8

Related

ENSRNOP00000039532.4, ENSRNOT00000041371.5

Conserved Domains (1) summary

pfam01248
Location:651 → 751

Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
XM_039096100.1 → XP_038952028.1 selenocysteine insertion sequence-binding protein 2 isoform X5

Conserved Domains (1) summary

pfam01248
Location:362 → 462

Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
XM_039096099.2 → XP_038952027.1 selenocysteine insertion sequence-binding protein 2 isoform X4

Conserved Domains (1) summary

pfam01248
Location:407 → 507

Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
XM_039096098.2 → XP_038952026.1 selenocysteine insertion sequence-binding protein 2 isoform X3
XM_063276769.1 → XP_063132839.1 selenocysteine insertion sequence-binding protein 2 isoform X2