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Aliases for LINC00839 Gene

Subcategory (RNA class) for LINC00839 Gene

non-coding RNA

Quality Score for this RNA gene is

13

Aliases for LINC00839 Gene

  • Long Intergenic Non-Protein Coding RNA 839 2 3 5

External Ids for LINC00839 Gene

Previous GeneCards Identifiers for LINC00839 Gene

  • GC10P042972

Summaries for LINC00839 Gene

GeneCards Summary for LINC00839 Gene

LINC00839 (Long Intergenic Non-Protein Coding RNA 839) is an RNA Gene, and is affiliated with the non-coding RNA class.

Additional gene information for LINC00839 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LINC00839 Gene

Genomics for LINC00839 Gene

GeneHancer (GH) Regulatory Elements for LINC00839 Gene

Promoters and enhancers for LINC00839 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
GH10J042474 Promoter/Enhancer 1.2 Ensembl ENCODE 631.9 +0.7 696 2.4 GLIS2 POLR2A ZIC2 CTCF PATZ1 ZNF692 ZFX SP2 SCRT2 MGA LINC00839 CCNYL2 ZNF33B ENSG00000215146 PIR48182
GH10J042636 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 20 +162.8 162844 3.1 ZFX ELF3 MNT ZNF148 NKRF POLR2A MLLT1 GTF2F1 ZNF687 AHR ZNF33B LOC105378268 PIR61818 ENSG00000285884 LINC00839
GH10J042551 Promoter/Enhancer 1.5 Ensembl ENCODE 22.3 +77.2 77209 2.6 ZFX ELF3 SIX5 ZNF148 NKRF MLLT1 ZNF687 CDC5L TRIM24 POLR2A ZNF37BP BMS1 LINC00839 ZNF33B HNRNPF PIR31407
GH10J042652 Enhancer 1.3 Ensembl ENCODE dbSUPER 23.1 +178.3 178292 3.1 CBFA2T2 MAFK TRIM24 SP1 HNF1A EGR1 SMARCA4 GMEB1 RXRA DPF2 PIR59472 LINC00839 ZNF32-AS2 BMS1 ZNF33B ZNF485 PIR60642
GH10J042643 Enhancer 1.3 Ensembl ENCODE dbSUPER 19.4 +170.4 170351 3.9 CC2D1A ZKSCAN8 CBFA2T2 ZNF148 MLLT1 GTF2F1 NCOA6 TRIM24 EGR1 ZNF639 PIR40268 LINC00839 ZNF33B ZNF239 LOC105378268 PIR60642 ENSG00000285884
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC00839 on UCSC Golden Path with GeneCards custom track

Genomic Locations for LINC00839 Gene

Genomic Locations for LINC00839 Gene
chr10:42,475,491-42,495,337
(GRCh38/hg38)
Size:
19,847 bases
Orientation:
Plus strand
chr10:42,970,939-42,990,785
(GRCh37/hg19)
Size:
19,847 bases
Orientation:
Plus strand

Genomic View for LINC00839 Gene

Genes around LINC00839 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LINC00839 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC00839 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC00839 Gene

Proteins for LINC00839 Gene

Post-translational modifications for LINC00839 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC00839 Gene

Domains & Families for LINC00839 Gene

Graphical View of Domain Structure for InterPro Entry

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for LINC00839 Gene

Function for LINC00839 Gene

Phenotypes From GWAS Catalog for LINC00839 Gene

Phenotypes for LINC00839 Gene

GenomeRNAi human phenotypes for LINC00839:
genes like me logo Genes that share phenotypes with LINC00839: view

Animal Model Products

CRISPR Products

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 LINC00839 Gene

Localization for LINC00839 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 LINC00839 Gene

Pathways & Interactions for LINC00839 Gene

PathCards logo

SuperPathways for LINC00839 Gene

No Data Available

Interacting Proteins for LINC00839 Gene

Gene Ontology (GO) - Biological Process for LINC00839 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LINC00839 Gene

Drugs & Compounds for LINC00839 Gene

No Compound Related Data Available

Transcripts for LINC00839 Gene

mRNA/cDNA for LINC00839 Gene

(1) REFSEQ mRNAs :
(8) Additional mRNA sequences :
(77) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
(1) RNA Central transcripts :

Unigene Clusters for LINC00839 Gene

Long intergenic non-protein coding RNA 839:
Representative Sequences:

CRISPR Products

Alternative Splicing Database (ASD) splice patterns (SP) for LINC00839 Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3a · 3b ^ 4a · 4b · 4c ^ 5
SP1: - -
SP2: -
SP3:
SP4:

Relevant External Links for LINC00839 Gene

GeneLoc Exon Structure for
LINC00839
ECgene alternative splicing isoforms for
LINC00839

Expression for LINC00839 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LINC00839 Gene

mRNA differential expression in normal tissues according to GTEx for LINC00839 Gene

This gene is overexpressed in Kidney - Cortex (x5.8) and Brain - Caudate (basal ganglia) (x4.0).

NURSA nuclear receptor signaling pathways regulating expression of LINC00839 Gene:

LINC00839

SOURCE GeneReport for Unigene cluster for LINC00839 Gene:

Hs.55977
genes like me logo Genes that share expression patterns with LINC00839: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , 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 LINC00839 Gene

Orthologs for LINC00839 Gene

Evolution for LINC00839 Gene

ENSEMBL:
Gene Tree for LINC00839 (if available)
TreeFam:
Gene Tree for LINC00839 (if available)

No data available for Orthologs for LINC00839 Gene

Paralogs for LINC00839 Gene

No data available for Paralogs for LINC00839 Gene

Variants for LINC00839 Gene

Sequence variations from dbSNP and Humsavar for LINC00839 Gene

SNP ID Clin Chr 10 pos Variation AA Info Type
rs1000106601 -- 42,488,001(+) A/G intron_variant
rs1000330345 -- 42,493,017(+) T/A intron_variant
rs1000567479 -- 42,483,642(+) C/G/T intron_variant
rs1000699004 -- 42,480,274(+) T/C intron_variant
rs1000813085 -- 42,480,056(+) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for LINC00839 Gene

Variant ID Type Subtype PubMed ID
dgv1097n54 CNV gain 21841781
dgv1098n54 CNV gain 21841781
esv2759746 CNV loss 17122850
esv3576449 CNV gain 25503493
esv3623008 CNV gain 21293372
esv3623011 CNV loss 21293372
esv3891789 CNV gain 25118596
esv3891795 CNV gain 25118596
nsv1042764 CNV gain 25217958
nsv1051346 CNV gain 25217958
nsv466877 CNV gain 19166990
nsv469725 CNV gain 16826518
nsv471665 CNV gain 15918152
nsv550672 CNV gain 21841781
nsv6498 CNV insertion 18451855

Additional Variant Information for LINC00839 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC00839

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for LINC00839 Gene

Disorders for LINC00839 Gene

Additional Disease Information for LINC00839

No disorders were found for LINC00839 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LINC00839 Gene

Publications for LINC00839 Gene

  1. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 2 3 58
  2. Transcriptome analysis of human gastric cancer. (PMID: 16341674) Oh JH … Kim NS (Mammalian genome : official journal of the International Mammalian Genome Society 2005) 3 58
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 58

Products for LINC00839 Gene

Sources for LINC00839 Gene

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