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NCK1-DT NCK1 divergent transcript [ Homo sapiens (human) ]

Gene ID: 101927597, updated on 4-Mar-2025

Summary

Official Symbol
NCK1-DTprovided by HGNC
Official Full Name
NCK1 divergent transcriptprovided by HGNC
Primary source
HGNC:HGNC:49645
See related
Ensembl:ENSG00000239213 AllianceGenome:HGNC:49645
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
NCK1-AS1; SLC35G2-AS1
Expression
Ubiquitous expression in lymph node (RPKM 2.8), spleen (RPKM 2.7) and 25 other tissues See more
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Genomic context

See NCK1-DT in Genome Data Viewer
Location:
3q22.3
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (136841976..136862063, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (139582626..139602716, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (136560818..136580905, complement)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene hESC enhancers GRCh37_chr3:136470665-136471596 and GRCh37_chr3:136471597-136472528 Neighboring gene STAG1 divergent transcript Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20588 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14760 Neighboring gene sulfotransferase family 1D member 1 pseudogene 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14761 Neighboring gene solute carrier family 35 member G2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20589 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20590 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14762 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20591 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20592 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:136587915-136588414 Neighboring gene NCK adaptor protein 1 Neighboring gene RAD51AP1 pseudogene 1 Neighboring gene MPRA-validated peak4840 silencer Neighboring gene IL20RB antisense RNA 1 Neighboring gene interleukin 20 receptor subunit beta

Genomic regions, transcripts, and products

Expression

  • Project title: Tissue-specific circular RNA induction during human fetal development
  • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
  • BioProject: PRJNA270632
  • Publication: PMID 26076956
  • Analysis date: Mon Apr 2 22:54:59 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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_110175.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript.
    Source sequence(s)
    AA708729, AC011597, HY007950
    Related
    ENST00000474250.6
  2. NR_110176.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site and lacks an internal exon resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AA708729, AC011597, CB047433
  3. NR_110177.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an exon resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AA708729, AC011597, DA714434, HY007950
    Related
    ENST00000762166.1

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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    136841976..136862063 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    139582626..139602716 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)