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TSSC2 tumor suppressing subtransferable candidate 2 (pseudogene) [ Homo sapiens (human) ]

Gene ID: 650368, updated on 10-Oct-2023

Summary

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Official Symbol
TSSC2provided by HGNC
Official Full Name
tumor suppressing subtransferable candidate 2 (pseudogene)provided by HGNC
Primary source
HGNC:HGNC:12384
See related
Ensembl:ENSG00000290960 MIM:608999; AllianceGenome:HGNC:12384
Gene type
pseudo
RefSeq status
PROVISIONAL
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Expression
Ubiquitous expression in fat (RPKM 1.6), ovary (RPKM 1.5) and 21 other tissues See more
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Genomic context

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Location:
11p15.4
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (3380961..3409148)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (3426355..3454559)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (3402191..3430378)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene vomeronasal 1 receptor 56 pseudogene Neighboring gene zinc finger protein 195 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:3400077-3400640 Neighboring gene Sharpr-MPRA regulatory region 4578 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:3425235-3426069 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:3426070-3426903 Neighboring gene olfactory receptor family 7 subfamily E member 12 pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:3427261-3427774 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:3427775-3428286 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:3430516-3431016 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:3431017-3431517 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3078 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3077 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3079 Neighboring gene family with sequence similarity 86, member A pseudogene Neighboring gene MPRA-validated peak1172 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:3456375-3456993 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:3458797-3458965 Neighboring gene ectonucleotide pyrophosphatase/phosphodiesterase 7 pseudogene 15 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:3480157-3480658 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:3480659-3481158 Neighboring gene uncharacterized LOC105376526 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:3510409-3510910 Neighboring gene uncharacterized LOC101927708 Neighboring gene uncharacterized LOC107984301 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr11:3533122-3533622 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr11:3533623-3534123

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. A 2.5-Mb transcript map of a tumor-suppressing subchromosomal transferable fragment from 11p15.5, and isolation and sequence analysis of three novel genes. Hu RJ, et al. Genomics, 1997 Nov 15. PMID 9403053
  2. Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. Brandenberger R, et al. Nat Biotechnol, 2004 Jun. PMID 15146197
  3. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, 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

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 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

  • asparagine-linked glycosylation 1 homolog (yeast, beta-1,4-mannosyltransferase) (ALG1) pseudogene
  • asparagine-linked glycosylation 1-like pseudogene
  • beta-1,4-mannosyltransferase pseudogene
  • tumor-supressing STF cDNA 2

Clone Names

  • FLJ41654

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_024248.1 RNA Sequence

    Status: PROVISIONAL

    Source sequence(s)
    AC123788, AL528594, CN418596, DB226687
    Related
    ENST00000533775.6

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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    3380961..3409148
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    3426355..3454559
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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