Htatsf1 HIV-1 Tat specific factor 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Htatsf1provided by RGD
Official Full Name: HIV-1 Tat specific factor 1provided by RGD
Primary source: RGD:1563377
See related: EnsemblRapid:ENSRNOG00000027761 AllianceGenome:RGD:1563377
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: RGD1563377
Summary: Predicted to enable RNA binding activity; chromatin-protein adaptor activity; and poly-ADP-D-ribose modification-dependent protein binding activity. Predicted to be involved in U2-type prespliceosome assembly; double-strand break repair via homologous recombination; and protein localization to site of double-strand break. Predicted to be located in nucleoplasm. Predicted to be part of U2 snRNP and U2-type spliceosomal complex. Predicted to be active in site of double-strand break. Orthologous to human HTATSF1 (HIV-1 Tat specific factor 1). [provided by Alliance of Genome Resources, Oct 2024]
Expression: Biased expression in Thymus (RPKM 106.6), Muscle (RPKM 104.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: Xq36

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	X	NC_086039.1 (139972742..139986923)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	X	NC_051356.1 (134935426..134949607)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	X	NC_005120.4 (159514053..159528281)

Chromosome X - NC_086039.1 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: 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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Markers

RH128755 (e-PCR)
- UniSTS:212063

RH139086 (e-PCR)
- UniSTS:221172

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables chromatin-protein adaptor activity	ISO Inferred from Sequence Orthology more info
enables poly-ADP-D-ribose modification-dependent protein binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in U2-type prespliceosome assembly	ISO Inferred from Sequence Orthology more info
involved_in chromatin organization	IEA Inferred from Electronic Annotation more info
involved_in double-strand break repair via homologous recombination	ISO Inferred from Sequence Orthology more info
involved_in mRNA splicing, via spliceosome	ISO Inferred from Sequence Orthology more info
involved_in protein localization to site of double-strand break	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of U2 snRNP	IBA Inferred from Biological aspect of Ancestor more info
part_of U2-type spliceosomal complex	IBA Inferred from Biological aspect of Ancestor more info
part_of U2-type spliceosomal complex	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
is_active_in site of double-strand break	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: 17S U2 SnRNP complex component HTATSF1

Names: HIV TAT specific factor 1; HIV Tat-specific factor 1

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_001108259.1 → NP_001101729.1 17S U2 SnRNP complex component HTATSF1

See identical proteins and their annotated locations for NP_001101729.1

Status: PROVISIONAL

Source sequence(s)

CH474106

UniProtKB/TrEMBL

A6KSQ2, D4A997

Related

ENSRNOP00000061583.2, ENSRNOT00000065636.5

Conserved Domains (3) summary

COG0724
Location:84 → 218

RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]

cd12281
Location:132 → 222

RRM1_TatSF1_like; RNA recognition motif 1 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins

cd12282
Location:263 → 353

RRM2_TatSF1_like; RNA recognition motif 2 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins