xnp-1 Transcriptional regulator ATRX homolog [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: xnp-1
Official Full Name: Transcriptional regulator ATRX homolog
Primary source: WormBase:WBGene00006961
Locus tag: CELE_B0041.7
See related: AllianceGenome:WB:WBGene00006961
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Caenorhabditis elegans (strain: Bristol N2)
Lineage: Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary: Predicted to enable several functions, including ATP binding activity; ATP hydrolysis activity; and ATP-dependent activity, acting on DNA. Involved in several processes, including embryo development; hermaphrodite genitalia development; and vulval development. Predicted to be active in nucleus. Is expressed in body wall musculature; germ line; hermaphrodite gonad; nervous system; and vulval precursor cell. Used to study intellectual disability. Human ortholog(s) of this gene implicated in X-linked mental retardation-hypotonic facies syndrome-1; alpha thalassemia-X-linked intellectual disability syndrome; alpha-thalassemia myelodysplasia syndrome; high grade glioma; and lung small cell carcinoma. Orthologous to human ATRX (ATRX chromatin remodeler). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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See xnp-1 in Genome Data Viewer

Location:: chromosome: I

Exon count:: 10

Sequence:: Chromosome: I; NC_003279.8 (4665933..4671738, complement)

Chromosome I - NC_003279.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003279.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

abrogation of xnp-1 function in combination with inactivation of genes of the NuRD complex, as well as lin-35/Rb and hpl-2/HP1 leads to a stereotyped block of larval development
Title: XNP-1/ATR-X acts with RB, HP1 and the NuRD complex during larval development in C. elegans.
xnp-1 lin-35 double mutants are typically sterile and exhibit severe defects in gonadal development
Title: lin-35/Rb and xnp-1/ATR-X function redundantly to control somatic gonad development in C. elegans.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

B0041.7 (e-PCR)
- UniSTS:308338

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP hydrolysis activity	IEA Inferred from Electronic Annotation more info
enables ATP-dependent chromatin remodeler activity	IBA Inferred from Biological aspect of Ancestor more info
enables ATP-dependent chromatin remodeler activity	IEA Inferred from Electronic Annotation more info
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables helicase activity	IEA Inferred from Electronic Annotation more info
enables hydrolase activity	IEA Inferred from Electronic Annotation more info
enables transcription coregulator activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in DNA repair	IEA Inferred from Electronic Annotation more info
involved_in chromatin organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in embryo development ending in birth or egg hatching	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in gonad development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in morphogenesis of an epithelium	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in reproductive process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vulval development	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: Transcriptional regulator ATRX homolog

NP_001020958.1

Confirmed by transcript evidence

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_003279.8 Reference assembly

Range

4665933..4671738 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001025787.5 → NP_001020958.1 Transcriptional regulator ATRX homolog [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001020958.1

Status: REVIEWED

UniProtKB/Swiss-Prot

O02061, Q9U7E0

Conserved Domains (3) summary

cd00046
Location:490 → 667

DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

cd00079
Location:946 → 1096

HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...

pfam00176
Location:466 → 796

SNF2_N; SNF2 family N-terminal domain