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LNCDAT lncRNA divergent activator of TBXT [ Homo sapiens (human) ]

Gene ID: 116804915, updated on 10-Oct-2023

Summary

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Official Symbol
LNCDATprovided by HGNC
Official Full Name
lncRNA divergent activator of TBXTprovided by HGNC
Primary source
HGNC:HGNC:54855
See related
Ensembl:ENSG00000288638 AllianceGenome:HGNC:54855
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
YYLNCT
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Genomic context

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See LNCDAT in Genome Data Viewer
Location:
6q27
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (166168097..166171172)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (167537899..167540973)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (166581585..166584660)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124901524 Neighboring gene uncharacterized LOC729681 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr6:166525837-166527036 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:166581481-166582075 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17773 Neighboring gene T-box transcription factor T Neighboring gene NANOG hESC enhancer GRCh37_chr6:166610696-166611243 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr6:166618881-166620080 Neighboring gene RNA, U6 small nuclear 153, pseudogene Neighboring gene ReSE screen-validated silencer GRCh37_chr6:166637642-166637828 Neighboring gene uncharacterized LOC101929297 Neighboring gene G protein subunit gamma 5 pseudogene 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. yylncT Defines a Class of Divergently Transcribed lncRNAs and Safeguards the T-mediated Mesodermal Commitment of Human PSCs. Frank S, et al. Cell Stem Cell, 2019 Feb 7. PMID 30554961

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Signifying their developmental function, the key mesoderm specifier BRACHYURY (T) is accompanied by yylncT, which localizes to the active T locus during mesoderm commitment.
    Title: yylncT Defines a Class of Divergently Transcribed lncRNAs and Safeguards the T-mediated Mesodermal Commitment of Human PSCs.
Submit: New GeneRIF Correction

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 Variation Viewer (GRCh37.p13)

General gene information

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Other Names

  • Yin Yang long non-coding RNA coded by T (BRACHYURY, TBXT) locus

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_166065.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL627443
    Related
    ENST00000675059.1

  2. NR_166066.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL627443

  3. NR_166067.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL627443

  4. NR_166068.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL627443

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_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    166168097..166171172
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    167537899..167540973
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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