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    TRAM2-AS1 TRAM2 antisense RNA 1 (head to head) [ Homo sapiens (human) ]

    Gene ID: 401264, updated on 10-Oct-2023

    Summary

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    Official Symbol
    TRAM2-AS1provided by HGNC
    Official Full Name
    TRAM2 antisense RNA 1 (head to head)provided by HGNC
    Primary source
    HGNC:HGNC:48663
    See related
    Ensembl:ENSG00000225791 AllianceGenome:HGNC:48663
    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
    Ubiquitous expression in thyroid (RPKM 4.4), kidney (RPKM 3.4) and 25 other tissues See more
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    Genomic context

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    See TRAM2-AS1 in Genome Data Viewer
    Location:
    6p12.2
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (52577202..52583993)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (52415949..52422740)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (52442000..52448791)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124901331 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:52285109-52285700 Neighboring gene EF-hand domain containing 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr6:52362612-52362813 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24679 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr6:52368564-52369763 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24680 Neighboring gene translocation associated membrane protein 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:52389524-52390029 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:52390030-52390534 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24681 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24682 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24683 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24684 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24685 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_92132 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:52438134-52438662 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24686 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17284 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17285 Neighboring gene FOXA motif-containing MPRA enhancer 62 Neighboring gene uncharacterized LOC124901330 Neighboring gene SH3 domain binding glutamate rich protein like 3 pseudogene

    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. CRISPRi-based genome-scale identification of functional long noncoding RNA loci in human cells. Liu SJ, et al. Science, 2017 Jan 6. PMID 27980086, Free PMC Article
    2. SUMOylation of DDX39A Alters Binding and Export of Antiviral Transcripts to Control Innate Immunity. Shi P, et al. J Immunol, 2020 Jul 1. PMID 32393512
    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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Clone Names

    • FLJ37798

    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_103446.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      AA730121, AK095117, AL049611, CX787946
      Related
      ENST00000606714.6

    2. NR_103447.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an internal segment in the 5' region, compared to variant 1.
      Source sequence(s)
      AA730121, AK095117, AL049611, BE741421, CX787946, DB479639
      Related
      ENST00000666605.1

    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_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      52577202..52583993
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      52415949..52422740
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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