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LOC339260 uncharacterized LOC339260 [ Homo sapiens (human) ]

Gene ID: 339260, updated on 22-Oct-2024

Summary

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Gene symbol
LOC339260
Gene description
uncharacterized LOC339260
See related
Ensembl:ENSG00000233098
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 testis (RPKM 1.7) and urinary bladder (RPKM 0.1) See more
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Genomic context

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See LOC339260 in Genome Data Viewer
Location:
17p11.2
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (20938566..20982357)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (20887381..20931176)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (20841879..20885670)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene CCDC144NL antisense RNA 1 Neighboring gene CCDC144A N-terminal like (pseudogene) Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:20799361-20799876 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:20802310-20803177 Neighboring gene RNA, U6 small nuclear 1178, pseudogene Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:20811295-20811890 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8310 Neighboring gene ribonuclease H1 pseudogene 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:20841589-20842090 Neighboring gene uncharacterized LOC124900389 Neighboring gene Sharpr-MPRA regulatory region 15661 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:20845395-20845894 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11874 Neighboring gene SPECC1 pseudogene 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11875 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11876 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:20901079-20901896 Neighboring gene ubiquitin specific peptidase 22 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:20937215-20937716 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8311 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:20946145-20947094 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:20947095-20948042 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:20954728-20955314 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11877 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:20970211-20970711 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:20978550-20979050 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr17:20987896-20989095 Neighboring gene long intergenic non-protein coding RNA 1563

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 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. 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
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

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

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_123730.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC087393, BC043529
    Related
    ENST00000582583.4

  2. NR_160712.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC087393, AC090774

  3. NR_160713.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC087393, AC090774, AC107926

  4. NR_160714.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC087393, AC090774, AC107926

  5. NR_160715.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC090774
    Related
    ENST00000737590.1

  6. NR_160716.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC087393, AC090774, AC107926

  7. NR_160717.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC087393, AC090774

  8. NR_160718.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC087393, AC090774, AC107926

  9. NR_160719.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC090774
    Related
    ENST00000584433.3

  10. NR_160720.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC090774
    Related
    ENST00000737592.1

  11. NR_160721.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC087393, AC090774

  12. NR_160722.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC087393, AC090774, AC107926

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
    20938566..20982357
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    20887381..20931176
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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