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TSPOAP1-AS1 TSPOAP1, SUPT4H1 and RNF43 antisense RNA 1 [ Homo sapiens (human) ]

Gene ID: 100506779, updated on 10-Oct-2023

Summary

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Official Symbol
TSPOAP1-AS1provided by HGNC
Official Full Name
TSPOAP1, SUPT4H1 and RNF43 antisense RNA 1provided by HGNC
Primary source
HGNC:HGNC:44148
See related
Ensembl:ENSG00000265148 AllianceGenome:HGNC:44148
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
BZRAP1-AS1
Expression
Ubiquitous expression in lymph node (RPKM 8.2), appendix (RPKM 7.8) and 25 other tissues See more
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Genomic context

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Location:
17q22
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (58325450..58353727)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (59193330..59221602)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (56402811..56431088)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124904038 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:56326145-56326710 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12462 Neighboring gene enhancer region in introns 7-9 of MPO Neighboring gene lactoperoxidase Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:56355955-56356644 Neighboring gene MPO proximal enhancer and promoter region Neighboring gene MPO upstream enhancer region Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:56379736-56380356 Neighboring gene Sharpr-MPRA regulatory region 10051 Neighboring gene myeloperoxidase Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:56386896-56387595 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:56389497-56390115 Neighboring gene TSPO associated protein 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8761 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8763 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8762 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:56402416-56402964 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8764 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12463 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8765 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12464 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12465 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12466 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12467 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8766 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12468 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12469 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12470 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12471 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:56412683-56413183 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:56413329-56413870 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12476 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12477 Neighboring gene Sharpr-MPRA regulatory regions 8228 and 8679 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12478 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12479 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12480 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12481 Neighboring gene MIR142 host genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8767 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8768 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr17:56430343-56430878 Neighboring gene microRNA 142 Neighboring gene microRNA 4736 Neighboring gene SPT4 homolog, DSIF elongation factor subunit Neighboring gene ring finger protein 43 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12482 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr17:56471542-56472741 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr17:56475825-56476680 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr17:56523372-56523966 Neighboring gene heat shock transcription factor 5 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8769 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8770 Neighboring gene SET pseudogene 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12483 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8771 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:56595757-56596502 Neighboring gene myotubularin related protein 4

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. Hypermethylation of the TSPOAP1-AS1 Promoter May Be Associated with Obesity in Overweight/Obese Korean Subjects. Yim NH, et al. Int J Mol Sci, 2020 May 7. PMID 32392798, Free PMC Article
  2. Long Noncoding RNA THAP9-AS1 and TSPOAP1-AS1 Provide Potential Diagnostic Signatures for Pediatric Septic Shock. Wu Y, et al. Biomed Res Int, 2020. PMID 33344646, Free PMC Article
  3. Long non-coding RNA BZRAP1-AS1 silencing suppresses tumor angiogenesis in hepatocellular carcinoma by mediating THBS1 methylation. Wang W, et al. J Transl Med, 2019 Dec 17. PMID 31847842, Free PMC Article
  4. Identification of a five-lncRNA signature for predicting the risk of tumor recurrence in patients with breast cancer. Li J, et al. Int J Cancer, 2018 Nov 1. PMID 29707762, Free PMC Article
  5. lncRNA BZRAP1-AS1 alleviates rheumatoid arthritis by regulating miR-1286/COL5A2 axis. Zhu J, et al. Immun Inflamm Dis, 2022 Feb. PMID 34766472, Free PMC Article

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. lncRNA BZRAP1-AS1 alleviates rheumatoid arthritis by regulating miR-1286/COL5A2 axis.
    Title: lncRNA BZRAP1-AS1 alleviates rheumatoid arthritis by regulating miR-1286/COL5A2 axis.
  2. Long Noncoding RNA THAP9-AS1 and TSPOAP1-AS1 Provide Potential Diagnostic Signatures for Pediatric Septic Shock.
    Title: Long Noncoding RNA THAP9-AS1 and TSPOAP1-AS1 Provide Potential Diagnostic Signatures for Pediatric Septic Shock.
  3. Hypermethylation of the TSPOAP1-AS1 Promoter May Be Associated with Obesity in Overweight/Obese Korean Subjects.
    Title: Hypermethylation of the TSPOAP1-AS1 Promoter May Be Associated with Obesity in Overweight/Obese Korean Subjects.
  4. Long non-coding RNA BZRAP1-AS1 silencing suppresses tumor angiogenesis in hepatocellular carcinoma by mediating THBS1 methylation.
    Title: Long non-coding RNA BZRAP1-AS1 silencing suppresses tumor angiogenesis in hepatocellular carcinoma by mediating THBS1 methylation.
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

  • BZRAP1 antisense RNA 1 (non-protein coding)
  • TSPOAP1 antisense RNA 1

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_038410.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript.
    Source sequence(s)
    AC004687, AI056234, AK000271, AK090885
    Related
    ENST00000579527.5

  2. NR_038411.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two exons, includes an alternate exon and uses an alternate splice site in the 3' region, compared to variant 1.
    Source sequence(s)
    AI056234, AK000271, AK311311

  3. NR_038412.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks two exons and includes an alternate exon, compared to variant 1.
    Source sequence(s)
    AC004687, AI056234, AK000271, AK311208

  4. NR_038413.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks two exons, includes an alternate exon and uses an alternate splice site in the 3' region, compared to variant 1.
    Source sequence(s)
    AI056234, AK000271, BI820069
    Related
    ENST00000667382.1

  5. NR_038414.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) lacks two exons, includes an alternate exon and uses an alternate splice site in the 3' region, compared to variant 1.
    Source sequence(s)
    AC004687, AI056234, AK000271
    Related
    ENST00000580022.5

  6. NR_038415.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) lacks two exons and uses an alternate splice site in the 3' region, compared to variant 1.
    Source sequence(s)
    AC004687, AI056234, BC032475

  7. NR_038416.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) lacks two exons, compared to variant 1.
    Source sequence(s)
    AC004687, AI056234, AK000271, BC050403

  8. NR_038417.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (8) lacks two exons, includes an alternate exon and uses an alternate splice site in the 3' region, compared to variant 1.
    Source sequence(s)
    AI056234, AV732878, BC064565
    Related
    ENST00000578025.5

  9. NR_038418.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (9) lacks two exons and includes an alternate exon, compared to variant 1.
    Source sequence(s)
    AC004687, AI056234, AK000271, AK311306, AV732878

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_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    58325450..58353727
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    59193330..59221602
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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