XACT X active specific transcript [Homo sapiens (human)] - Gene

Summary

Official Symbol: XACTprovided by HGNC
Official Full Name: X active specific transcriptprovided by HGNC
Primary source: HGNC:HGNC:45056
See related: MIM:300901; AllianceGenome:HGNC:45056
Gene type: ncRNA
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary: This gene produces a spliced long non-coding RNA that is thought to play a role in the control of X-chromosome inactivation (XCI). This transcript has been shown to specifically coat the active X chromosome in human pluripotent cells. [provided by RefSeq, Mar 2015]
Annotation information: Annotation category: partial on reference assembly
Expression: Low expression observed in reference dataset See more
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Genomic context

Location:: Xq23

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	X	NC_000023.11 (113616300..113618153, complement)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	X	NC_060947.1 (112069011..112070863, complement)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	X	NC_000023.10 (112859587..112861440, complement)

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?

The endogenous retroviruses was hijacked by younger hominoid-specific endogenous retroviruses that gave rise to the promoter of XACT, thus wiring its expression to the pluripotency network.
Title: A primate-specific retroviral enhancer wires the XACT lncRNA into the core pluripotency network in humans.
These findings therefore suggest a mechanism involving antagonistic activity of XIST and XACT in controlling X chromosome activity in early human embryos.
Title: XACT Noncoding RNA Competes with XIST in the Control of X Chromosome Activity during Human Early Development.
XACT is a novel lncRNA that coats the active X-chromosome specifically in human pluripotent cells highlighting the existence of human-specific mechanisms of X-chromosome regulation.
Title: Long non-coding RNAs and human X-chromosome regulation: a coat for the active X chromosome.

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Phenotypes

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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)

General gene information

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Other Names

X active coating transcript
X active specific transcript (non-protein coding)

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.