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LINC01411 long intergenic non-protein coding RNA 1411 [ Homo sapiens (human) ]

Gene ID: 101928176, updated on 10-Oct-2023

Summary

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Official Symbol
LINC01411provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1411provided by HGNC
Primary source
HGNC:HGNC:50703
See related
Ensembl:ENSG00000249306 AllianceGenome:HGNC:50703
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
Low expression observed in reference dataset See more
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Genomic context

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Location:
5q35.2
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (174336354..174527139)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (174877309..175068065)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (173763357..173954142)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102724551 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:173517875-173518376 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:173518377-173518876 Neighboring gene neuronal vesicle trafficking associated 2 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:173571770-173572270 Neighboring gene MPRA-validated peak5582 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:173586113-173586614 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:173630390-173630890 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr5:173631827-173632589 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:173632590-173633351 Neighboring gene uncharacterized LOC124901139 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23674 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:173734378-173734878 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16642 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23675 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:173754289-173754790 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:173754791-173755290 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr5:173755250-173756449 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr5:173762765-173763964 Neighboring gene cysteine rich transmembrane module containing 1 pseudogene Neighboring gene uncharacterized LOC105377739 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr5:173958925-173960124 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene 71 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr5:173999018-174000217 Neighboring gene SUMO2 pseudogene 6 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:174035513-174036138 Neighboring gene uncharacterized LOC105377740

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 prostate cancer LncRNAs by RNA-Seq. Hu CC, et al. Asian Pac J Cancer Prev, 2014. PMID 25422238
  2. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article

GeneRIFs: Gene References Into Functions

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

  • RP11-267A15.1

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_125806.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC108104, AC108112, BG330133, BM051440, BU620825
    Related
    ENST00000510234.5

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_000005.10 Reference GRCh38.p14 Primary Assembly

    Range
    174336354..174527139
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    174877309..175068065
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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