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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

Gene LinkOut

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