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PIRAT1 PU.1 (SPI1) induced regulator of S100A8 and S100A9 alarmin transcription 1 [ Homo sapiens (human) ]

Gene ID: 101929559, updated on 10-Oct-2023

Summary

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Official Symbol
PIRAT1provided by HGNC
Official Full Name
PU.1 (SPI1) induced regulator of S100A8 and S100A9 alarmin transcription 1provided by HGNC
Primary source
HGNC:HGNC:37459
See related
Ensembl:ENSG00000237803 AllianceGenome:HGNC:37459
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
PIRAT; LINC00211; NCRNA00211
Expression
Low expression observed in reference dataset See more
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Genomic context

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Location:
2p22.2
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (37826247..37875863, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (37833205..37882834, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (38053390..38103006, complement)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107985869 Neighboring gene serine/threonine kinase receptor associated protein pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15600 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11365 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11366 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:38168691-38169192 Neighboring gene regulator of microtubule dynamics 2 Neighboring gene RMDN2 antisense RNA 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:38207514-38207877 Neighboring gene zinc finger protein 430 pseudogene Neighboring gene NANOG hESC enhancer GRCh37_chr2:38244929-38245461 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11367 Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 2:38298139 Neighboring gene CYP1B1 promoter Neighboring gene cytochrome P450 family 1 subfamily B member 1

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. Single-cell RNA sequencing uncovers the nuclear decoy lincRNA PIRAT as a regulator of systemic monocyte immunity during COVID-19. Aznaourova M, et al. Proc Natl Acad Sci U S A, 2022 Sep 6. PMID 35998224, Free PMC Article
  2. 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
  3. 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 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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Other Names

  • PU.1 (SP1) induced regulator of S100A8 and S100A9 alarmin transcription 1
  • PU.1-induced regulator of alarmin transcription
  • long intergenic non-protein coding RNA 211

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_110011.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AC010878, AK057187, HY016653
    Related
    ENST00000413792.5

  2. NR_110012.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an exon and contains two alternate 5' terminal exons, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC010878, BG430067

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_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    37826247..37875863 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    37833205..37882834 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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