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    LOC339260 uncharacterized LOC339260 [ Homo sapiens (human) ]

    Gene ID: 339260, updated on 10-Dec-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: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 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)

    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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