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XNDC1N XRCC1 N-terminal domain containing 1, N-terminal like [ Homo sapiens (human) ]

Gene ID: 100133315, updated on 16-Mar-2024

Summary

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Official Symbol
XNDC1Nprovided by HGNC
Official Full Name
XRCC1 N-terminal domain containing 1, N-terminal likeprovided by HGNC
Primary source
HGNC:HGNC:54661
See related
Ensembl:ENSG00000254469 AllianceGenome:HGNC:54661
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
Predicted to enable damaged DNA binding activity. Predicted to be involved in single strand break repair. Located in chromosome and nucleolus. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Low expression observed in reference dataset See more
Orthologs
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Genomic context

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See XNDC1N in Genome Data Viewer
Location:
11q13.4
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (71865509..71928594, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (71792417..71855483, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (71576555..71639640, complement)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene XNDC1N-ZNF705EP-ALG1L9P readthrough Neighboring gene RNA, 5S ribosomal pseudogene 342 Neighboring gene MPRA-validated peak1338 silencer Neighboring gene defensin beta 130C (pseudogene) Neighboring gene defensin beta 131B Neighboring gene olfactory receptor family 7 subfamily E member 128 pseudogene Neighboring gene olfactory receptor family 7 subfamily E member 126 pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5171 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:71660091-71661028 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:71661029-71661964 Neighboring gene ring finger protein 121 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5172 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5173 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5174 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5175 Neighboring gene interleukin 18 binding protein Neighboring gene nuclear mitotic apparatus protein 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: 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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Related articles in PubMed

  1. Identification of two distinct genes at the vertebrate TRPC2 locus and their characterisation in a marsupial and a monotreme. Frankenberg S, et al. BMC Mol Biol, 2011 Aug 19. PMID 21854574, Free PMC Article
  2. High-throughput analyses of hnRNP H1 dissects its multi-functional aspect. Uren PJ, et al. RNA Biol, 2016. PMID 26760575, Free PMC Article
  3. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. Rose JE, et al. Mol Med, 2010 Jul-Aug. PMID 20379614, Free PMC Article
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
    Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
Submit: New GeneRIF Correction

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)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Readthrough XNDC1N-ZNF705EP-ALG1L9P

Readthrough gene: XNDC1N-ZNF705EP-ALG1L9P, Included gene: ALG1L9P, Included gene: ZNF705EP

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables damaged DNA binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in single strand break repair IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in chromosome IDA
Inferred from Direct Assay
more info
  
located_in nucleolus IDA
Inferred from Direct Assay
more info
  

General protein information

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Preferred Names
protein XNDC1N
Names
XRCC1 N-terminal domain containing 1-like protein
putative short transient receptor potential channel 2-like protein
trpC2-like protein

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)

  1. NM_001375847.2 → NP_001362776.1  protein XNDC1N isoform 1

    Status: VALIDATED

    Source sequence(s)
    AP002490, AP002495
    Consensus CDS
    CCDS91528.1
    UniProtKB/Swiss-Prot
    Q6ZNB5
    UniProtKB/TrEMBL
    A0A7P0Z4L6, E9PQ18
    Related
    ENSP00000506430.1, ENST00000679412.2
    Conserved Domains (1) summary
    pfam01834
    Location:1 → 150
    XRCC1_N; XRCC1 N terminal domain

  2. NM_001375848.2 → NP_001362777.1  protein XNDC1N isoform 2

    Status: VALIDATED

    Source sequence(s)
    AP002490, AP002495
    UniProtKB/TrEMBL
    A0A8Q3WLL2
    Conserved Domains (1) summary
    pfam01834
    Location:1 → 150
    XRCC1_N; XRCC1 N terminal domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    71865509..71928594 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    71792417..71855483 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6ZNB5.2 GenPept UniProtKB/Swiss-Prot:Q6ZNB5

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials