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LINC01138 long intergenic non-protein coding RNA 1138 [ Homo sapiens (human) ]

Gene ID: 388685, updated on 10-Oct-2023

Summary

Official Symbol
LINC01138provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1138provided by HGNC
Primary source
HGNC:HGNC:49454
See related
Ensembl:ENSG00000274020 AllianceGenome:HGNC:49454
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
LINC00875
Expression
Ubiquitous expression in spleen (RPKM 5.5), lymph node (RPKM 5.3) and 25 other tissues See more
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Genomic context

See LINC01138 in Genome Data Viewer
Location:
1q21.2
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (148432959..148459920, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (146347450..146374380)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (147905097..147932048, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:143686659-143687364 Neighboring gene PDE4DIP pseudogene 6 Neighboring gene RNA, variant U1 small nuclear 3 Neighboring gene uncharacterized LOC124904400 Neighboring gene family with sequence similarity 91 member A1 pseudogene Neighboring gene uncharacterized LOC105371224 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:143743100-143743638 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:143744178-143744715 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:143749622-143750141 Neighboring gene peptidylprolyl isomerase A like 4G Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1648 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1286 Neighboring gene RNA, variant U1 small nuclear 27

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

  • long intergenic non-protein coding RNA 875

Clone Names

  • FLJ17098, FLJ17228, FLJ39739, FLJ99434

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_027468.3 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AK309393, AK310186, BC071624, BM724545, DA386627, DB220560
  2. NR_104014.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two internal exons and uses an alternate splice site at the 3' terminal exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AK309393, BC071624, DA386627
    Related
    ENST00000613452.1

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
    148432959..148459920 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    146347450..146374380
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_207400.1: Suppressed sequence

    Description
    NM_207400.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.