Aliases for LINC00839 Gene

Subcategory (RNA class) for LINC00839 Gene

lncRNA

Number of RNA Genes sources:

3 / 14

Aliases for LINC00839 Gene

  • Long Intergenic Non-Protein Coding RNA 839 2 3 5
  • LINC00839 2 168
  • HSALNG0077486 167
  • NONHSAG005687 92

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 lncRNA class.

Additional gene information for LINC00839 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 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 1.1 Ensembl ENCODE 531.9 +0.8 807 2.6 ZIC2 ZNF423 MXI1 SP2 ZBTB17 POLR2A POLR2G USF1 MNT ZNF335 LINC00839 CCNYL2 ZNF33B ENSG00000215146 piR-54183
GH10J042636 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 20 +162.8 162755 3.3 FOXK2 ZNF217 EP300 TCF12 SIN3A MYC NRF1 POLR2G GTF2E2 PHF8 ZNF33B ENSG00000285884 LOC105378268 lnc-ZNF33B-3 piR-38773 LINC00839
GH10J042551 Promoter/Enhancer 1.7 Ensembl ENCODE CraniofacialAtlas 22.3 +77.3 77320 2.4 ZBTB40 ZNF217 NRF1 POLR2G PHF8 SIX5 ZFX ZNF10 ZIC2 ZBTB10 ZNF37BP lnc-ZNF33B-4 LINC00839 ZNF33B piR-46002-057
GH10J042643 Enhancer 1.3 Ensembl ENCODE dbSUPER 19.4 +170.4 170362 3.9 ZNF217 PHB2 ZBTB11 AFF1 TARDBP REST CTBP1 MYC NFRKB HINFP piR-47269 LINC00839 ZNF33B ZNF239 ENSG00000285884 LOC105378268 piR-37597 LINC01518
GH10J042652 Enhancer 1 ENCODE dbSUPER 23.1 +178.3 178268 3 PHB2 CTBP1 MYC HINFP HDAC3 NCOR1 ZNF282 ZNF316 NFIC ARNT piR-36427 LINC00839 ZNF33B piR-37597 LINC01518
- 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
chr10:42,475,480-42,496,726
(GRCh38/hg38)
Size:
21,247 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

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure 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
;

Gene Ontology (GO) - Biological Process for LINC00839 Gene

None

No data available for Pathways by source , Interacting Proteins 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

37 RNACentral transcripts :
2 REFSEQ mRNAs :
8 NCBI additional mRNA sequence :
9 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
14 NONCODE transcripts :
13 LncBook transcripts :
25 LNCipedia transcripts :

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

Expression for LINC00839 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and 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).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for 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

Additional dbSNP identifiers (rs#s) for LINC00839 Gene

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 , Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP 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 54
  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 54
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 54

Products for LINC00839 Gene

Sources for LINC00839 Gene