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AS-PTPRE lncRNA antisense to PTPRE protein-coding gene [ Homo sapiens (human) ]

Gene ID: 105378553, updated on 10-Oct-2023

Summary

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Gene symbol
AS-PTPRE
Gene description
lncRNA antisense to PTPRE protein-coding gene
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Expression
Biased expression in bone marrow (RPKM 14.9) and appendix (RPKM 0.9) See more
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Genomic context

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See AS-PTPRE in Genome Data Viewer
Location:
10q26.2
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (128057732..128062425, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (128956292..128960982, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (129855996..129860689, complement)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene ReSE screen-validated silencer GRCh37_chr10:129702059-129702280 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2931 Neighboring gene clarin 3 Neighboring gene uncharacterized LOC124902557 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:129733337-129734076 Neighboring gene protein tyrosine phosphatase receptor type E Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:129775634-129776134 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:129820967-129821467 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:129843223-129843724 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:129843725-129844224 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4197 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4198 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr10:129860232-129861431 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:129861772-129862370 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:129867603-129867800 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:129876157-129876658 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:129876659-129877158 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:129889651-129890152 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:129890153-129890652 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2932 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4201 Neighboring gene marker of proliferation Ki-67 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2933 Neighboring gene NANOG hESC enhancer GRCh37_chr10:129963700-129964282 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr10:129970982-129972181 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr10:130000381-130000888 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr10:129999872-130000380 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:130007752-130008313 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2934 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2935 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2936 Neighboring gene long intergenic non-protein coding RNA 1163 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:130109218-130109718 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:130109719-130110219 Neighboring gene uncharacterized LOC124902558

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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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)

Genotypes

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_136149.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    KR186191, KR186194, KR186195

  2. NR_136150.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    KR186194, KR186195

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_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    128057732..128062425 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    128956292..128960982 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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Other Literature Sources
Molecular Biology Databases