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SND1-IT1 SND1 intronic transcript 1 [ Homo sapiens (human) ]

Gene ID: 27099, updated on 10-Oct-2023

Summary

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Official Symbol
SND1-IT1provided by HGNC
Official Full Name
SND1 intronic transcript 1provided by HGNC
Primary source
HGNC:HGNC:24158
See related
Ensembl:ENSG00000279078 AllianceGenome:HGNC:24158
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
NAG8; NSG-X; C7orf54
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Genomic context

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Location:
7q32.1
Exon count:
1
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (127997509..128000077)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (129309189..129311757)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (127637562..127640130)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:127291844-127292462 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26588 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr7:127305706-127306528 Neighboring gene SND1 divergent transcript Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26589 Neighboring gene staphylococcal nuclease and tudor domain containing 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:127343327-127343826 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr7:127366923-127367714 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:127375481-127375695 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:127438882-127439229 Neighboring gene CD2 cytoplasmic tail binding protein 2 pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18596 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr7:127540623-127541156 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26590 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:127583497-127583998 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:127583999-127584498 Neighboring gene MPRA-validated peak6714 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26592 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26593 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:127658625-127659175 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18597 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18598 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18599 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18600 Neighboring gene uncharacterized LOC124901743 Neighboring gene leucine rich repeat containing 4

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. Exosome-mediated lncRNA SND1-IT1 from gastric cancer cells enhances malignant transformation of gastric mucosa cells via up-regulating SNAIL1. Jin G, et al. J Transl Med, 2022 Jun 23. PMID 35739527, Free PMC Article
  2. Long non-coding RNA SND1-IT1 accelerates cell proliferation, invasion and migration via regulating miR-132-3p/SMAD2 axis in retinoblastoma. Yin DF, et al. Bioengineered, 2021 Dec. PMID 34969359, Free PMC Article
  3. Human chromosome 7: DNA sequence and biology. Scherer SW, et al. Science, 2003 May 2. PMID 12690205, Free PMC Article
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Exosome-mediated lncRNA SND1-IT1 from gastric cancer cells enhances malignant transformation of gastric mucosa cells via up-regulating SNAIL1.
    Title: Exosome-mediated lncRNA SND1-IT1 from gastric cancer cells enhances malignant transformation of gastric mucosa cells via up-regulating SNAIL1.
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 studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

General gene information

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Markers

Other Names

  • SND1 intronic transcript 1 (non-protein coding)
  • brain and nasopharyngeal carcinoma susceptibility
  • nasopharyngeal carcinoma associated gene 8

Clone Names

  • MGC138346

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_027330.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AF191492, AK024176
    Related
    ENST00000623342.1

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_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    127997509..128000077
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    129309189..129311757
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_014411.2: Suppressed sequence

    Description
    NM_014411.2: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
Nucleotide Protein
Heading Accession and Version

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