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XXYLT1-AS2 XXYLT1 antisense RNA 2 [ Homo sapiens (human) ]

Gene ID: 101410543, updated on 19-Feb-2024

Summary

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Official Symbol
XXYLT1-AS2provided by HGNC
Official Full Name
XXYLT1 antisense RNA 2provided by HGNC
Primary source
HGNC:HGNC:41154
See related
Ensembl:ENSG00000230266 AllianceGenome:HGNC:41154
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Expression
Biased expression in lymph node (RPKM 1.7), stomach (RPKM 0.6) and 10 other tissues See more
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Genomic context

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Location:
3q29
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (195147871..195152856)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (197845771..197850736)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (194868600..194873585)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene xyloside xylosyltransferase 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:194859771-194860272 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:194860273-194860772 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21047 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21048 Neighboring gene microRNA 3137 Neighboring gene uncharacterized LOC105374296 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21049 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:194873291-194873932 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:194873933-194874573 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21050 Neighboring gene RNA, 7SL, cytoplasmic 36, pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:194880491-194880991 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:194881004-194881518 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21051 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21052 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:194884078-194884245 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:194900787-194901364 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:194901365-194901942 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr3:194904967-194906166 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:194908389-194908904 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:194927427-194927954 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:194927955-194928480 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:194932550-194933131 Neighboring gene RNA, U6 small nuclear 25, pseudogene Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:194947105-194947699 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:194960771-194961333 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15031 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21053 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:194974283-194975070 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:194976828-194977002 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15032 Neighboring gene uncharacterized LOC124909475

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. Long noncoding RNA XXYLT1-AS2 regulates proliferation and adhesion by targeting the RNA binding protein FUS in HUVEC. Wang Q, et al. Atherosclerosis, 2020 Apr. PMID 32171981
  2. Initial assessment of human gene diversity and expression patterns based upon 83 million nucleotides of cDNA sequence. Adams MD, et al. Nature, 1995 Sep 28. PMID 7566098

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. LncRNA XXYLT1-AS2 promotes tumor progression via autophagy inhibition through ubiquitinated degradation of TFEB in hepatocellular carcinoma.
    Title: LncRNA XXYLT1-AS2 promotes tumor progression via autophagy inhibition through ubiquitinated degradation of TFEB in hepatocellular carcinoma.
  2. Long noncoding RNA XXYLT1-AS2 regulates proliferation and adhesion by targeting the RNA binding protein FUS in HUVEC.
    Title: Long noncoding RNA XXYLT1-AS2 regulates proliferation and adhesion by targeting the RNA binding protein FUS in HUVEC.
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

General gene information

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Other Names

  • XXYLT1 antisense RNA 2 (non-protein coding)

Clone Names

  • AC011325.1

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.

RNA

  1. NR_102710.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AA344494, AI307804, AW963078
    Related
    ENST00000447975.1

  2. NR_102711.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 3' exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AA344559, AI307804, AW963078, R83154
    Related
    ENST00000426468.2

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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    195147871..195152856
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    197845771..197850736
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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