PRDM16-DT Gene (RNA Gene)

PRDM16 Divergent Transcript

GC01M003059
GIFtS:
17

Aliases for PRDM16-DT Gene

Subcategory (RNA class) for PRDM16-DT Gene

lncRNA

Quality Score for this RNA gene is

15

Aliases for PRDM16-DT Gene

  • PRDM16 Divergent Transcript 2 3 5
  • LINC00982 2 3 170
  • Long Intergenic Non-Protein Coding RNA 982 2 3
  • HSALNG0000303 169
  • NONHSAG000181 94
  • Lnc-DPrdm16 3

External Ids for PRDM16-DT Gene

Previous HGNC Symbols for PRDM16-DT Gene

  • LINC00982

Summaries for PRDM16-DT Gene

GeneCards Summary for PRDM16-DT Gene

PRDM16-DT (PRDM16 Divergent Transcript) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with PRDM16-DT include Gastric Adenocarcinoma and Gastric Cancer.

Additional gene information for PRDM16-DT Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for PRDM16-DT Gene

Genomics for PRDM16-DT Gene

GeneHancer (GH) Regulatory Elements for PRDM16-DT Gene

Promoters and enhancers for PRDM16-DT Gene
GeneHancer (GH) Identifier GH Type GH
Score		 GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites		 Gene Targets
GH01J003065 Promoter/Enhancer 2.2 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 750.6 0.0 -14 9.4 CTCF ZBTB6 RBPJ NR2F1 NR2F6 ZNF362 RAD21 PRDM1 GLIS2 ZIC2 PRDM16 LOC100420339 PRDM16-DT ACTRT2 ENSG00000269896 MIR4251
GH01J003274 Enhancer 0.8 VISTA UCNEbase dbSUPER 11.6 -204.0 -203952 0.8 piR-59218 ACTRT2 PRDM16 PRDM16-DT AB372781-001
GH01J003275 Enhancer 0.5 Ensembl CraniofacialAtlas dbSUPER 11.6 -205.4 -205430 1 ACTRT2 PRDM16 PRDM16-DT AB372781-001 piR-59218
GH01J003093 Enhancer 0.4 Ensembl dbSUPER 12.7 -23.7 -23712 2 ZIC2 PRDM16-DT PRDM16 HES5 MIR4251
GH01J003277 Enhancer 0.3 Ensembl dbSUPER 11.6 -206.6 -206612 0.2 AB372781-001 ACTRT2 PRDM16 PRDM16-DT piR-59218
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PRDM16-DT on UCSC Golden Path with GeneCards custom track

Genomic Locations for PRDM16-DT Gene

Genomic Locations for PRDM16-DT Gene
chr1:3,055,439-3,070,489
(GRCh38/hg38)
Size:
15,051 bases
Orientation:
Minus strand
chr1:2,976,179-2,985,001
(GRCh37/hg19)
Size:
8,823 bases
Orientation:
Minus strand

Genomic View for PRDM16-DT Gene

Genes around PRDM16-DT on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PRDM16-DT Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PRDM16-DT Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for PRDM16-DT Gene

Proteins for PRDM16-DT Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

Post-translational modifications for PRDM16-DT Gene

No Post-translational modifications

No data available for DME Specific Peptides for PRDM16-DT Gene

Domains & Families for PRDM16-DT Gene

Gene Families for PRDM16-DT Gene

HGNC:
genes like me logo Genes that share domains with PRDM16-DT: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for PRDM16-DT Gene

Function for PRDM16-DT Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Phenotypes From GWAS Catalog for PRDM16-DT Gene

Phenotypes for PRDM16-DT Gene

GenomeRNAi human phenotypes for PRDM16-DT:
genes like me logo Genes that share phenotypes with PRDM16-DT: view

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for PRDM16-DT Gene

Localization for PRDM16-DT Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for PRDM16-DT Gene

Pathways & Interactions for PRDM16-DT Gene

PathCards logo

SuperPathways for PRDM16-DT Gene

No Data Available

Gene Ontology (GO) - Biological Process for PRDM16-DT Gene

None

No data available for Pathways by source and SIGNOR curated interactions for PRDM16-DT Gene

Drugs & Compounds for PRDM16-DT Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for PRDM16-DT Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for PRDM16-DT Gene

(3) REFSEQ mRNAs :
(6) Additional mRNA sequences :
(62) Selected AceView cDNA sequences:
(10) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
(11) NONCODE transcripts :
(28) RNACentral transcripts :
(8) LncBook transcripts :
(25) LNCipedia transcripts :

Alternative Splicing Database (ASD) splice patterns (SP) for PRDM16-DT Gene

No ASD Table

Relevant External Links for PRDM16-DT Gene

GeneLoc Exon Structure for
PRDM16-DT
ECgene alternative splicing isoforms for
PRDM16-DT

Expression for PRDM16-DT Gene

Products:

  1. Primer

NURSA nuclear receptor signaling pathways regulating expression of PRDM16-DT Gene:

PRDM16-DT
No Expression Related Data Available

Primer Products

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for PRDM16-DT Gene

Orthologs for PRDM16-DT Gene

Evolution for PRDM16-DT Gene

ENSEMBL:
Gene Tree for PRDM16-DT (if available)
TreeFam:
Gene Tree for PRDM16-DT (if available)

No data available for Orthologs for PRDM16-DT Gene

Paralogs for PRDM16-DT Gene

No data available for Paralogs for PRDM16-DT Gene

Variants for PRDM16-DT Gene

Sequence variations from dbSNP and Humsavar for PRDM16-DT Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs180925565 likely-benign, not specified 3,069,246(-) C/A/G/T upstream_transcript_variant
rs370334235 likely-benign, not specified 3,069,280(-) G/A upstream_transcript_variant
rs774793829 likely-benign, not specified 3,069,243(-) T/C upstream_transcript_variant
rs1000652195 -- 3,065,506(-) G/A intron_variant
rs1000901394 -- 3,060,431(-) G/A genic_downstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for PRDM16-DT Gene

Variant ID Type Subtype PubMed ID
dgv11n100 CNV gain 25217958
esv3583359 CNV gain 25503493
esv3585036 CNV gain 21293372
esv3585037 CNV gain 21293372
nsv1000306 CNV gain 25217958
nsv1013792 CNV gain 25217958
nsv428399 CNV gain 18775914
nsv470686 CNV loss 18288195
nsv545098 CNV loss 21841781
nsv824697 CNV gain 20364138
nsv829759 CNV loss 17160897
nsv951959 CNV deletion 24416366

Additional Variant Information for PRDM16-DT Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PRDM16-DT

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for PRDM16-DT Gene

Disorders for PRDM16-DT Gene

MalaCards: The human disease database

(2) MalaCards diseases for PRDM16-DT Gene - From: LncRNADisease and DISEASES

Disorder Aliases PubMed IDs
gastric adenocarcinoma
  • adenocarcinoma of stomach
gastric cancer
  • gastric cancer, somatic
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for PRDM16-DT

ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with PRDM16-DT: view

No data available for UniProtKB/Swiss-Prot and Genatlas for PRDM16-DT Gene

Publications for PRDM16-DT Gene

  1. De novo reconstruction of human adipose transcriptome reveals conserved lncRNAs as regulators of brown adipogenesis. (PMID: 29626186) Ding C … Sun L (Nature communications 2018) 2 3 56
  2. Upregulated expression of long non-coding RNA LINC00982 regulates cell proliferation and its clinical relevance in patients with gastric cancer. (PMID: 26334618) Fei ZH … Xie CY (Tumour biology : the journal of the International Society for Oncodevelopmental Biology and Medicine 2016) 2 3 56
  3. Analysis of long non-coding RNA expression profiles in gastric cancer. (PMID: 23801869) Cao WJ … Zhang ZY (World journal of gastroenterology 2013) 2 3 56
  4. Low expression of LINC00982 and PRDM16 is associated with altered gene expression, damaged pathways and poor survival in lung adenocarcinoma. (PMID: 30132554) Lv W … Qian B (Oncology reports 2018) 3 56
  5. Interactions of pathological hallmark proteins: tubulin polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PMID: 21832049) Oláh J … Ovádi J (The Journal of biological chemistry 2011) 3 56

ExternalLinks

View latest publications for PRDM16-DT gene in Mastermind

Products for PRDM16-DT Gene

Sources for PRDM16-DT Gene