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LINC00466 long intergenic non-protein coding RNA 466 [ Homo sapiens (human) ]

Gene ID: 199899, updated on 10-Oct-2023

Summary

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Official Symbol
LINC00466provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 466provided by HGNC
Primary source
HGNC:HGNC:27294
See related
Ensembl:ENSG00000224209 AllianceGenome:HGNC:27294
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
Restricted expression toward testis (RPKM 1.3) See more
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Genomic context

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See LINC00466 in Genome Data Viewer
Location:
1p31.3
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (63159083..63317257, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (63037563..63192922, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (63624754..63782928, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1121 Neighboring gene Sharpr-MPRA regulatory region 3967 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1122 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1123 Neighboring gene autophagy related 4C cysteine peptidase Neighboring gene NANOG hESC enhancer GRCh37_chr1:63347799-63348356 Neighboring gene VISTA enhancer hs311 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:63432364-63432864 Neighboring gene VISTA enhancer hs168 Neighboring gene VISTA enhancer hs169 Neighboring gene long intergenic non-protein coding RNA 1739 Neighboring gene MPRA-validated peak269 silencer Neighboring gene uncharacterized LOC105378770 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr1:63663717-63664472 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr1:63664473-63665227 Neighboring gene VISTA enhancer hs764 Neighboring gene RNA, 5S ribosomal pseudogene 49 Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 1:63727542 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:63751744-63752272 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:63752273-63752802 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:63764905-63765721 Neighboring gene ribosomal protein SA pseudogene 65 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 947 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 948 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 949 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:63788679-63789368 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:63792285-63793153 Neighboring gene FOXD3 antisense RNA 1 Neighboring gene microRNA 6068 Neighboring gene forkhead box D3

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. Tumor-Promoting Activity of Long Noncoding RNA LINC00466 in Lung Adenocarcinoma via miR-144-Regulated HOXA10 Axis. Ma T, et al. Am J Pathol, 2019 Nov. PMID 31381886
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. LINC00466 could restrain the miR-144 expression to up-regulate HOXA10 and, therefore, promote lung adenocarcinoma.
    Title: Tumor-Promoting Activity of Long Noncoding RNA LINC00466 in Lung Adenocarcinoma via miR-144-Regulated HOXA10 Axis.
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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Markers

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_038252.3 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC096543, AL049636
    Related
    ENST00000634725.1

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    63159083..63317257 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    63037563..63192922 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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