U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LINC01396 long intergenic non-protein coding RNA 1396 [ Homo sapiens (human) ]

Gene ID: 103695434, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Official Symbol
LINC01396provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1396provided by HGNC
Primary source
HGNC:HGNC:50675
See related
Ensembl:ENSG00000273396 AllianceGenome:HGNC:50675
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
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
4p16.2
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (4844437..4850827)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (4814037..4820442)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (4846164..4852554)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124900165 Neighboring gene STX18 antisense RNA 1 (head to head) Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:4666938-4667438 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:4668341-4668936 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15216 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:4672506-4673099 Neighboring gene small nucleolar RNA, C/D box 162 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21231 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:4760651-4761066 Neighboring gene uncharacterized LOC101928279 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr4:4764243-4765442 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr4:4782258-4783457 Neighboring gene Sharpr-MPRA regulatory region 11147 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:4853897-4854854 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:4854855-4855811 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15217 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15218 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15219 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:4864037-4864708 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:4866226-4867143 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:4872827-4873402 Neighboring gene Sharpr-MPRA regulatory region 11527 Neighboring gene msh homeobox 1 Neighboring gene lactate dehydrogenase A pseudogene 1

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

GeneRIFs: Gene References Into Functions

Phenotypes

Go to the top of the page Help

Review eQTL and phenotype association data in this region using PheGenI

Variation

Go to the top of the page Help

See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_125765.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC092437
    Related
    ENST00000609099.1

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_000004.12 Reference GRCh38.p14 Primary Assembly

    Range
    4844437..4850827
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    4814037..4820442
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Molecular Biology Databases