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LINC01215 long intergenic non-protein coding RNA 1215 [ Homo sapiens (human) ]

Gene ID: 101929623, updated on 10-Oct-2023

Summary

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Official Symbol
LINC01215provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1215provided by HGNC
Primary source
HGNC:HGNC:49651
See related
Ensembl:ENSG00000271856 AllianceGenome:HGNC:49651
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 9.2), appendix (RPKM 4.6) and 4 other tissues See more
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Genomic context

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Location:
3q13.12
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (108125064..108138610)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (110844853..110858390)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (107843911..107857457)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene CD47 molecule Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14591 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14592 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14593 Neighboring gene uncharacterized LOC105374031 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14594 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20208 Neighboring gene CRISPRi-validated cis-regulatory element chr3.3177 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:107843148-107843648 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20212 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20213 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20214 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr3:107849902-107851101 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14595 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20215 Neighboring gene intraflagellar transport 57 Neighboring gene MPRA-validated peak4760 silencer Neighboring gene MPRA-validated peak4761 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20216 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:107941185-107941478 Neighboring gene uncharacterized LOC124909405

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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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

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_110028.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript.
    Source sequence(s)
    AA813865, AC012020, AW292872
    Related
    ENST00000607746.1

  2. NR_110030.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks and internal exon and uses an alternate 5' most exon compared to variant 1.
    Source sequence(s)
    AC012020, AW292872, CT001622

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
    108125064..108138610
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    110844853..110858390
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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Molecular Biology Databases