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LINC01399 long intergenic non-protein coding RNA 1399 [ Homo sapiens (human) ]

Gene ID: 104310353, updated on 16-Jan-2024

Summary

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Official Symbol
LINC01399provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1399provided by HGNC
Primary source
HGNC:HGNC:50680
See related
Ensembl:ENSG00000293220 AllianceGenome:HGNC:50680
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
Ubiquitous expression in kidney (RPKM 2.8), colon (RPKM 2.7) and 24 other tissues See more
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Genomic context

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Location:
22q12.3
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 22 NC_000022.11 (35119824..35231056, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 22 NC_060946.1 (35578637..35689949, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 22 NC_000022.10 (35515817..35627049, complement)

Chromosome 22 - NC_000022.11Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 2885 Neighboring gene uncharacterized LOC105373015 Neighboring gene H3K27ac hESC enhancer GRCh37_chr22:35345833-35346334 Neighboring gene H3K27ac hESC enhancer GRCh37_chr22:35346335-35346834 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:35419897-35420488 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18889 Neighboring gene uncharacterized LOC124905110 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr22:35472054-35473253 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18891 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18892 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18890 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18893 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr22:35531129-35531665 Neighboring gene intestine specific homeobox Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18894 Neighboring gene Sharpr-MPRA regulatory region 1139 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18895 Neighboring gene H3K27ac hESC enhancer GRCh37_chr22:35554225-35555056 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr22:35567219-35568418 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:35573611-35574112 Neighboring gene uncharacterized LOC105373017 Neighboring gene COX7B pseudogene 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr22:35652780-35653280 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13652 Neighboring gene RNA, U7 small nuclear 167 pseudogene Neighboring gene HMG-box containing 4 Neighboring gene H3K27ac hESC enhancer GRCh37_chr22:35695462-35695984 Neighboring gene H3K27ac hESC enhancer GRCh37_chr22:35695985-35696507 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18897 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:35697031-35697552 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13653 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18898 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18899 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:35713551-35714052 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:35714053-35714552 Neighboring gene H3K27ac hESC enhancer GRCh37_chr22:35714588-35715088 Neighboring gene H3K27ac hESC enhancer GRCh37_chr22:35715089-35715589 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr22:35718923-35720122 Neighboring gene Sharpr-MPRA regulatory region 10159 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:35726353-35726853 Neighboring gene target of myb1 membrane trafficking protein Neighboring gene microRNA 3909

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 intrahepatic cholangiocarcinoma related genes by comparison with normal liver tissues using expressed sequence tags. Wang AG, et al. Biochem Biophys Res Commun, 2006 Jul 7. PMID 16712791

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

  • CTA-714B7.5

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_126356.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL031300, Z99755
    Related
    ENST00000423311.1

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_000022.11 Reference GRCh38.p14 Primary Assembly

    Range
    35119824..35231056 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060946.1 Alternate T2T-CHM13v2.0

    Range
    35578637..35689949 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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