Tarbp2 Tarbp2 subunit of RISC loading complex [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Tarbp2provided by RGD
Official Full Name: Tarbp2 subunit of RISC loading complexprovided by RGD
Primary source: RGD:1307375
See related: EnsemblRapid:ENSRNOG00000042355 AllianceGenome:RGD:1307375
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
Summary: Predicted to enable several functions, including RNA binding activity; protein N-terminus binding activity; and protein homodimerization activity. Predicted to contribute to pre-miRNA binding activity. Predicted to be involved in several processes, including negative regulation of defense response to virus by host; positive regulation of viral genome replication; and post-transcriptional gene silencing by RNA. Predicted to act upstream of or within several processes, including positive regulation of muscle cell differentiation; regulation of gene expression; and spermatid development. Predicted to be located in cytoplasm and nuclear body. Predicted to be part of RISC complex and RISC-loading complex. Orthologous to human TARBP2 (TARBP2 subunit of RISC loading complex). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 53.1), Spleen (RPKM 52.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q36

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (135527710..135532826)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (133649118..133654306)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (144121688..144126860)

Chromosome 7 - NC_086025.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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?

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables double-stranded RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables double-stranded RNA binding	IEA Inferred from Electronic Annotation more info
enables double-stranded RNA binding	ISO Inferred from Sequence Orthology more info
enables enzyme binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables miRNA binding	IEA Inferred from Electronic Annotation more info
enables pre-miRNA binding	IEA Inferred from Electronic Annotation more info
contributes_to pre-miRNA binding	ISO Inferred from Sequence Orthology more info
enables pre-miRNA binding	ISO Inferred from Sequence Orthology more info
enables protein homodimerization activity	IEA Inferred from Electronic Annotation more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables protein sequestering activity	ISO Inferred from Sequence Orthology more info
enables siRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables siRNA binding	IEA Inferred from Electronic Annotation more info
enables siRNA binding	ISO Inferred from Sequence Orthology more info
enables siRNA binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in RISC complex assembly	IEA Inferred from Electronic Annotation more info
involved_in RISC complex assembly	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
involved_in global gene silencing by mRNA cleavage	IEA Inferred from Electronic Annotation more info
involved_in global gene silencing by mRNA cleavage	ISO Inferred from Sequence Orthology more info
involved_in global gene silencing by mRNA cleavage	ISS Inferred from Sequence or Structural Similarity more info
involved_in miRNA processing	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within multicellular organism growth	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cytoplasmic pattern recognition receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of defense response to virus by host	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of defense response to virus by host	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within neural precursor cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of muscle cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of translation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of viral genome replication	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of viral genome replication	ISS Inferred from Sequence or Structural Similarity more info
involved_in pre-miRNA processing	IEA Inferred from Electronic Annotation more info
involved_in pre-miRNA processing	ISO Inferred from Sequence Orthology more info
involved_in pre-miRNA processing	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of miRNA processing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of miRNA processing	ISO Inferred from Sequence Orthology more info
involved_in regulation of regulatory ncRNA processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of siRNA processing	IEA Inferred from Electronic Annotation more info
involved_in regulation of translation	IEA Inferred from Electronic Annotation more info
involved_in regulation of viral transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of viral transcription	ISO Inferred from Sequence Orthology more info
involved_in regulation of viral transcription	ISS Inferred from Sequence or Structural Similarity more info
involved_in siRNA processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in siRNA processing	IEA Inferred from Electronic Annotation more info
involved_in siRNA processing	ISO Inferred from Sequence Orthology more info
involved_in siRNA processing	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within single fertilization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within skeletal muscle tissue regeneration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within spermatid development	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of RISC complex	IBA Inferred from Biological aspect of Ancestor more info
part_of RISC complex	IEA Inferred from Electronic Annotation more info
part_of RISC complex	ISO Inferred from Sequence Orthology more info
part_of RISC complex	ISS Inferred from Sequence or Structural Similarity more info
part_of RISC-loading complex	IBA Inferred from Biological aspect of Ancestor more info
part_of RISC-loading complex	IEA Inferred from Electronic Annotation more info
part_of RISC-loading complex	ISO Inferred from Sequence Orthology more info
part_of RISC-loading complex	ISS Inferred from Sequence or Structural Similarity more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in nuclear body	IEA Inferred from Electronic Annotation more info
located_in nuclear body	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology 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
located_in perinuclear region of cytoplasm	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: RISC-loading complex subunit TARBP2

Names: TAR (HIV) RNA binding protein 2; TAR (HIV-1) RNA binding protein 2; TARBP2, RISC loading complex RNA binding subunit

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_001034941.1 → NP_001030113.1 RISC-loading complex subunit TARBP2

See identical proteins and their annotated locations for NP_001030113.1

Status: PROVISIONAL

Source sequence(s)

BC104690

UniProtKB/Swiss-Prot

Q3SWU0

UniProtKB/TrEMBL

A0A8I5Y6G0

Related

ENSRNOP00000061329.3, ENSRNOT00000064661.4

Conserved Domains (2) summary

smart00358
Location:31 → 79

DSRM; Double-stranded RNA binding motif

cd00048
Location:158 → 221

DSRM; Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, ...

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_086025.1 Reference GRCr8

Range

135527710..135532826

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006242429.5 → XP_006242491.1 RISC-loading complex subunit TARBP2 isoform X1

UniProtKB/TrEMBL

A0A8I5Y6G0

Conserved Domains (2) summary

smart00358
Location:31 → 71

DSRM; Double-stranded RNA binding motif

cd00048
Location:118 → 181

DSRM; Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, ...
XM_063264008.1 → XP_063120078.1 RISC-loading complex subunit TARBP2 isoform X6
XM_039079665.2 → XP_038935593.1 RISC-loading complex subunit TARBP2 isoform X5

Conserved Domains (2) summary

cd19893
Location:114 → 185

DSRM_TARBP2_rpt3; third double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins

cl00054
Location:2 → 47

DSRM_SF; double-stranded RNA binding motif (DSRM) superfamily
XM_006242430.5 → XP_006242492.1 RISC-loading complex subunit TARBP2 isoform X2

UniProtKB/TrEMBL

A0A8I5ZPX6

Related

ENSRNOP00000079010.1, ENSRNOT00000118634.2

Conserved Domains (1) summary

cd00048
Location:67 → 130

DSRM; Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, ...
XM_039079657.2 → XP_038935585.1 RISC-loading complex subunit TARBP2 isoform X3

Conserved Domains (2) summary

cd10844
Location:59 → 125

DSRM_TARBP2_rpt2; second double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins

cd19893
Location:192 → 263

DSRM_TARBP2_rpt3; third double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
XM_039079661.2 → XP_038935589.1 RISC-loading complex subunit TARBP2 isoform X4

Conserved Domains (2) summary

cd10844
Location:15 → 81

DSRM_TARBP2_rpt2; second double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins

cd19893
Location:148 → 219

DSRM_TARBP2_rpt3; third double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
XM_039079660.2 → XP_038935588.1 RISC-loading complex subunit TARBP2 isoform X4

Conserved Domains (2) summary

cd10844
Location:15 → 81

DSRM_TARBP2_rpt2; second double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins

cd19893
Location:148 → 219

DSRM_TARBP2_rpt3; third double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
XM_063264007.1 → XP_063120077.1 RISC-loading complex subunit TARBP2 isoform X5
XM_063264005.1 → XP_063120075.1 RISC-loading complex subunit TARBP2 isoform X4