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LINC00858 long intergenic non-protein coding RNA 858 [ Homo sapiens (human) ]

Gene ID: 170425, updated on 19-Feb-2024

Summary

Official Symbol
LINC00858provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 858provided by HGNC
Primary source
HGNC:HGNC:27276
See related
Ensembl:ENSG00000229404 AllianceGenome:HGNC:27276
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LNMAT2; CRCAL-2
Expression
Low expression observed in reference dataset See more
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Genomic context

See LINC00858 in Genome Data Viewer
Location:
10q23.1
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (84279980..84294659)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (85158503..85173182)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (86039736..86054415)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:86004955-86005454 Neighboring gene leucine rich repeat, Ig-like and transmembrane domains 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2553 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr10:86028972-86030171 Neighboring gene retinal G protein coupled receptor Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3678 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:86057631-86058131 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:86073792-86074670 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2554 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3679 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3680 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3681 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_17641 Neighboring gene coiled-coil serine rich protein 2 Neighboring gene Sharpr-MPRA regulatory region 13339 Neighboring gene ribosomal protein L12 pseudogene 29 Neighboring gene transportin 1 pseudogene 1

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

General gene information

Markers

Other Names

  • colorectal cancer associated lncRNA
  • lymph node metastasis-associated transcript 2

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_038220.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AK056561
    Related
    ENST00000415469.5

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_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    84279980..84294659
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    85158503..85173182
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)