U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC643339 uncharacterized LOC643339 [ Homo sapiens (human) ]

Gene ID: 643339, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Gene symbol
LOC643339
Gene description
uncharacterized LOC643339
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:
12q22
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (93003758..93377736, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (92984622..93358710, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (93397534..93771512, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene early endosome antigen 1 Neighboring gene heterogeneous nuclear ribonucleoprotein A1 pseudogene 50 Neighboring gene MPRA-validated peak1889 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6754 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4703 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6755 Neighboring gene NANOG hESC enhancer GRCh37_chr12:93358015-93358572 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6756 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6757 Neighboring gene MPRA-validated peak1891 silencer Neighboring gene RNA, U6 small nuclear 1329, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6759 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6760 Neighboring gene long intergenic non-protein coding RNA 2413 Neighboring gene ReSE screen-validated silencer GRCh37_chr12:93431350-93431527 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6761 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr12:93467941-93468861 Neighboring gene DPPA3 pseudogene 5 Neighboring gene uncharacterized LOC105369908 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6762 Neighboring gene ribosomal protein L41 pseudogene 5 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6763 Neighboring gene ReSE screen-validated silencer GRCh37_chr12:93535709-93535869 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr12:93561467-93562016 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6764 Neighboring gene long intergenic non-protein coding RNA 2412 Neighboring gene MPRA-validated peak1892 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6765 Neighboring gene MPRA-validated peak1893 silencer Neighboring gene small nucleolar RNA U13 Neighboring gene small nucleolar RNA SNORD74 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6766 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6767 Neighboring gene HNF4 motif-containing MPRA enhancer 125 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:93729207-93729708 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:93729709-93730208 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:93731209-93731709 Neighboring gene ReSE screen-validated silencer GRCh37_chr12:93741082-93741250 Neighboring gene small nucleolar RNA U13 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4704 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:93764071-93765034 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:93771297-93772236 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6768 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4707 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4708 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4709 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:93835621-93836258 Neighboring gene nudix hydrolase 4 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6769 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6770 Neighboring gene ubiquitin conjugating enzyme E2 N Neighboring gene mitochondrial ribosomal protein L42 Neighboring gene RNA, 7SL, cytoplasmic 737, pseudogene

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

Related articles in PubMed

  1. Genome-wide association study identifies variants associated with histologic features of nonalcoholic Fatty liver disease. Chalasani N, et al. Gastroenterology, 2010 Nov. PMID 20708005, Free PMC Article
  2. Genome-wide association study combining pathway analysis for typical sporadic amyotrophic lateral sclerosis in Chinese Han populations. Xie T, et al. Neurobiol Aging, 2014 Jul. PMID 24529757

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

EBI GWAS Catalog

Description
Genome-wide association study combining pathway analysis for typical sporadic amyotrophic lateral sclerosis in Chinese Han populations.
EBI GWAS Catalog
Genome-wide association study identifies variants associated with histologic features of nonalcoholic Fatty liver disease.
EBI GWAS Catalog

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

General gene information

Go to the top of the page Help

Markers

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_040096.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC021646, AC124947, AC126172

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_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    93003758..93377736 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    92984622..93358710 complement
    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