HTATSF1 HIV-1 Tat specific factor 1 [Homo sapiens (human)] - Gene

Summary

Official Symbol: HTATSF1provided by HGNC
Official Full Name: HIV-1 Tat specific factor 1provided by HGNC
Primary source: HGNC:HGNC:5276
See related: Ensembl:ENSG00000102241 MIM:300346; AllianceGenome:HGNC:5276
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: TATSF1; TAT-SF1; dJ196E23.2
Summary: The protein encoded by this gene functions as a cofactor for the stimulation of transcriptional elongation by HIV-1 Tat, which binds to the HIV-1 promoter through Tat-TAR interaction. This protein may also serve as a dual-function factor to couple transcription and splicing and to facilitate their reciprocal activation. Alternatively spliced transcript variants have been found for this gene.[provided by RefSeq, Sep 2009]
Expression: Ubiquitous expression in adrenal (RPKM 48.7), brain (RPKM 28.0) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: Xq26.3

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	X	NC_000023.11 (136497229..136512346)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	X	NC_060947.1 (134805972..134821090)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	X	NC_000023.10 (135579388..135594505)

Chromosome X - NC_000023.11 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: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Human Tat-specific factor 1 binds the HIV-1 genome and selectively transports HIV-1 RNAs.
Title: Human Tat-specific factor 1 binds the HIV-1 genome and selectively transports HIV-1 RNAs.
This study validates Tat-SF1 as an HDF in CD4+ T cell-derived SupT1 cells.
Title: Impact of sustained RNAi-mediated suppression of cellular cofactor Tat-SF1 on HIV-1 replication in CD4+ T cells.
these findings suggest that Tat-SF1 functions independently in transcription and splicing of cellular genes.
Title: Identification of Tat-SF1 cellular targets by exon array analysis reveals dual roles in transcription and splicing.
Tat-SF1 is not required for regulating HIV-1 transcription, but is required for maintaining the ratios of different classes of HIV-1 transcripts.
Title: Tat-SF1 is not required for Tat transactivation but does regulate the relative levels of unspliced and spliced HIV-1 RNAs.
phosphorylated by P-TEFb kinase during HIV-1 transcription in Tat/TAR dependent manner
Title: Coordination of transcription factor phosphorylation and histone methylation by the P-TEFb kinase during human immunodeficiency virus type 1 transcription.
Intracellular HIV-1 Tat protein represses constitutive LMP2 transcription increasing proteasome activity by interfering with the binding of IRF-1 to STAT1
Title: Intracellular HIV-1 Tat protein represses constitutive LMP2 transcription increasing proteasome activity by interfering with the binding of IRF-1 to STAT1.
These results support the notion that Tat-induced neuropathogenesis is mediated by multiple mechanisms involving both intracellular and extracellular Tat protein.
Title: Proliferation inhibition of astrocytes, neurons, and non-glial cells by intracellularly expressed human immunodeficiency virus type 1 (HIV-1) Tat protein.

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Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Replication interactions

Interaction	Pubs
Knockdown of HIV-1 Tat specific factor 1 (HTATSF1) by siRNA inhibits HIV-1 replication in HeLa-derived TZM-bl cells and in CD4+ SupT1 cells	PubMed

Protein interactions

Protein	Gene	Interaction	Pubs
Nef	nef	HIV-1 Nef expression in human T cell lines upregulates factors that positively regulate HIV, including Tat-SF1, U1 SNRNP, and IRF-2	PubMed
Tat	tat	HIV-1 Tat-mediated splicing is dependent on splicing associated factors Tat-SF1 and CA150	PubMed
	tat	Tat-SF1 is a required cofactor for HIV-1 Tat activity that stimulates Tat-mediated activation of the HIV-1 LTR promoter	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH48850 (e-PCR)
- UniSTS:10313

RH48015 (e-PCR)
- UniSTS:45912

STS-U76992 (e-PCR)
- UniSTS:1168

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables RNA binding	HDA more info	PubMed
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables chromatin-protein adaptor activity	IDA Inferred from Direct Assay more info	PubMed
enables poly-ADP-D-ribose modification-dependent protein binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in U2-type prespliceosome assembly	IDA Inferred from Direct Assay more info	PubMed
involved_in U2-type prespliceosome assembly	NAS Non-traceable Author Statement more info	PubMed
involved_in chromatin organization	IEA Inferred from Electronic Annotation more info
involved_in double-strand break repair via homologous recombination	IDA Inferred from Direct Assay more info	PubMed
involved_in mRNA splicing, via spliceosome	IDA Inferred from Direct Assay more info	PubMed
involved_in mRNA splicing, via spliceosome	NAS Non-traceable Author Statement more info	PubMed
involved_in protein localization to site of double-strand break	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
part_of U2 snRNP	IBA Inferred from Biological aspect of Ancestor more info
part_of U2 snRNP	NAS Non-traceable Author Statement more info	PubMed
part_of U2-type spliceosomal complex	IBA Inferred from Biological aspect of Ancestor more info
part_of U2-type spliceosomal complex	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	IDA Inferred from Direct Assay more info
located_in nucleoplasm	TAS Traceable Author Statement more info
located_in nucleus	NAS Non-traceable Author Statement more info	PubMed
is_active_in site of double-strand break	IDA Inferred from Direct Assay more info	PubMed
part_of spliceosomal complex	NAS Non-traceable Author Statement more info	PubMed

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; cofactor required for Tat activation of HIV-1 transcription

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.

Genomic

NG_013235.1 RefSeqGene

Range

5514..20268

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001163280.2 → NP_001156752.1 17S U2 SnRNP complex component HTATSF1

See identical proteins and their annotated locations for NP_001156752.1

Status: REVIEWED

Description

Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.

Source sequence(s)

AB209303, BC009896, BU633070

Consensus CDS

CCDS14657.1

UniProtKB/Swiss-Prot

D3DWG9, O43719, Q59G06, Q99730

UniProtKB/TrEMBL

B4DRS4

Related

ENSP00000442699.1, ENST00000535601.5

Conserved Domains (3) summary

TIGR00927
Location:451 → 715

2A1904; K+-dependent Na+/Ca+ exchanger

cd12281
Location:132 → 222

RRM1_TatSF1_like; RNA recognition motif 1 (RRM1) found in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins

cd12282
Location:263 → 353

RRM2_TatSF1_like; RNA recognition motif 2 (RRM2) found in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
NM_014500.5 → NP_055315.2 17S U2 SnRNP complex component HTATSF1

See identical proteins and their annotated locations for NP_055315.2

Status: REVIEWED

Description

Transcript Variant: This variant (2) is missing a 5' non-coding exon, and therefore, has a different 5' UTR compared to variant 1. Variants 1 and 2 encode the same protein.

Source sequence(s)

BC009896, BU633070

Consensus CDS

CCDS14657.1

UniProtKB/Swiss-Prot

D3DWG9, O43719, Q59G06, Q99730

UniProtKB/TrEMBL

B4DRS4

Related

ENSP00000218364.4, ENST00000218364.5

Conserved Domains (3) summary

TIGR00927
Location:451 → 715

2A1904; K+-dependent Na+/Ca+ exchanger

cd12281
Location:132 → 222

RRM1_TatSF1_like; RNA recognition motif 1 (RRM1) found in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins

cd12282
Location:263 → 353

RRM2_TatSF1_like; RNA recognition motif 2 (RRM2) found in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins