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LINC01312 long intergenic non-protein coding RNA 1312 [ Homo sapiens (human) ]

Gene ID: 154089, updated on 17-Sep-2024

Summary

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Official Symbol
LINC01312provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1312provided by HGNC
Primary source
HGNC:HGNC:28525
See related
AllianceGenome:HGNC:28525
Gene type
ncRNA
RefSeq status
PREDICTED
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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See LINC01312 in Genome Data Viewer
Location:
6q23.2
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (133821147..133853992)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (135010009..135042733)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (134142285..134175130)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene TCF21 antisense RNA inducing promoter demethylation Neighboring gene GATA motif-containing MPRA enhancer 179 Neighboring gene MPRA-validated peak6128 silencer Neighboring gene ferritin heavy chain 1 pseudogene 26 Neighboring gene uncharacterized LOC124901402 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17554 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr6:134175312-134176050 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr6:134209799-134210712 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:134211964-134212728 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:134213614-134214222 Neighboring gene transcription factor 21 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17555 Neighboring gene umcharacterized LOC128092253 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_90026 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_90028 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25081 Neighboring gene TATA-box binding protein like 1

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 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. Common variants near MBNL1 and NKX2-5 are associated with infantile hypertrophic pyloric stenosis. Feenstra B, et al. Nat Genet, 2012 Feb 5. PMID 22306654, Free PMC Article
  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

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Common variants near MBNL1 and NKX2-5 are associated with infantile hypertrophic pyloric stenosis.
EBI GWAS Catalog

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

Clone Names

  • MGC34034

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_027030.1 RNA Sequence

    Status: PREDICTED

    Source sequence(s)
    AL137011

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    133821147..133853992
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    135010009..135042733
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_153224.2: Suppressed sequence

    Description
    NM_153224.2: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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