U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

SCAT1 S-phase cancer associated transcript 1 [ Homo sapiens (human) ]

Gene ID: 101928710, updated on 17-Sep-2024

Summary

Go to the top of the page Help
Official Symbol
SCAT1provided by HGNC
Official Full Name
S-phase cancer associated transcript 1provided by HGNC
Primary source
HGNC:HGNC:52930
See related
Ensembl:ENSG00000267123 AllianceGenome:HGNC:52930
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
LINC02081; XLOC_012582
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
See SCAT1 in Genome Data Viewer
Location:
17q25.3
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (78617384..78632057, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (79511858..79526994, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (76613466..76628139, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene dynein axonemal heavy chain 17 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr17:76528450-76529649 Neighboring gene uncharacterized LOC124904065 Neighboring gene RNA, 7SL, cytoplasmic 454, pseudogene Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr17:76554009-76555208 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76576879-76577380 Neighboring gene ReSE screen-validated silencer GRCh37_chr17:76583208-76583369 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76584370-76584882 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76584883-76585395 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:76614363-76614864 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:76614865-76615364 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76618411-76619402 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76622057-76622556 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76627973-76628474 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76641825-76642326 Neighboring gene uncharacterized LOC124904066 Neighboring gene MPRA-validated peak3019 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76662364-76662975 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76662976-76663586 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76663587-76664197 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:76664198-76664807 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:76671141-76672019 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76672283-76672784 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:76672785-76673284 Neighboring gene cytohesin 1 Neighboring gene RNA, U6 small nuclear 638, 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 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

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

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)

General gene information

Go to the top of the page Help

Other Names

  • long intergenic non-protein coding RNA 2081

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_110848.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AC099804, KF456332
    Related
    ENST00000586185.2

  2. NR_110849.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses alternate splice sites at the 5' and 3' terminal exons and at an internal exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC099804, KF456332
    Related
    ENST00000591384.7

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_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    78617384..78632057 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    79511858..79526994 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
Research Materials