Aliases for LINC00840 Gene

Subcategory (RNA class) for LINC00840 Gene

lncRNA

Number of RNA Genes sources:

3 / 17

Aliases for LINC00840 Gene

  • Long Intergenic Non-Protein Coding RNA 840 2 3 5
  • LINC00840 2 5
  • NONHSAG005734.2 91
  • NONHSAG005733.2 91
  • HSALNG0077592 164
  • Lnc-ZNF485-68 165
  • HSALNG0077590 164

External Ids for LINC00840 Gene

Previous GeneCards Identifiers for LINC00840 Gene

  • GC10P044356
  • GC10P043859
  • GC10P043780
  • GC10P043781

Summaries for LINC00840 Gene

GeneCards Summary for LINC00840 Gene

LINC00840 (Long Intergenic Non-Protein Coding RNA 840) is an RNA Gene, and is affiliated with the lncRNA class.

Additional gene information for LINC00840 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 LINC00840 Gene

Genomics for LINC00840 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LINC00840 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
GH10J043855 Promoter/Enhancer 1.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 600.2 +79.1 79055 4 ZIC2 ZNF341 JUND CEBPB ZNF316 MAFF FOS MAFK MAFG BHLHE40 LINC00840 LINC02659 piR-33056-002 LOC107984189 LINC00841 LINC00619 CXCL12
GH10J043845 Promoter/Enhancer 1.4 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 600.2 +67.8 67755 1.4 EED NR2F2 RAD21 LINC00840 CXCL12 ENSG00000229116 LINC02659 piR-33056-002 LOC107984189 LINC00841 LINC00619
GH10J043778 Promoter/Enhancer 0.7 EPDnew Ensembl 600.7 +0.2 154 1 FOXA1 ESR1 GATA3 LINC02658 LINC00619 LINC00840 LOC105378275 LINC02659 HNRNPA3P1 LOC107984189 ZNF32
GH10J043846 Promoter/Enhancer 0.5 EPDnew dbSUPER 600.2 +66.3 66341 0.1 LINC00840 piR-33056-002 LOC107984189 LINC00841 LINC00619 CXCL12
GH10J043780 Enhancer 0.2 Ensembl 600.7 +2.0 1955 0.6 LINC02658 LINC00619 LINC00840 LOC105378275 LINC02659 HNRNPA3P1 LOC107984189 ZNF32
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC00840 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for LINC00840 Gene

Genomic Locations for LINC00840 Gene
chr10:43,778,946-43,901,004
(GRCh38/hg38)
Size:
122,059 bases
Orientation:
Plus strand
chr10:44,354,859-44,390,881
(GRCh37/hg19)
Size:
36,023 bases
Orientation:
Plus strand

Genomic View for LINC00840 Gene

Genes around LINC00840 on UCSC Golden Path with GeneCards custom track
LINC00840 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Cytogenetic band:
LINC00840 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC00840 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC00840 Gene

Proteins for LINC00840 Gene

Post-translational modifications for LINC00840 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC00840 Gene

Domains & Families for LINC00840 Gene

Gene Families for LINC00840 Gene

genes like me logo Genes that share domains with LINC00840: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LINC00840 Gene

Function for LINC00840 Gene

Phenotypes From GWAS Catalog for LINC00840 Gene

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for LINC00840 Gene

Localization for LINC00840 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LINC00840 gene
Compartment Confidence
plasma membrane 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for LINC00840 Gene

Pathways & Interactions for LINC00840 Gene

PathCards logo

SuperPathways for LINC00840 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LINC00840 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for LINC00840 Gene

Drugs & Compounds for LINC00840 Gene

No Compound Related Data Available

Transcripts for LINC00840 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for LINC00840 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS000006A9A7_9606 lncRNA 1974 6

HGNC: 44987,

RefSeq: NR_038268,

Ensembl: ENST00000431737 (view in UCSC) ,

LncBook: HSALNT0161951,

LNCipedia: lnc-ZNF485-68:8,

NONCODE: NONHSAT012998.2,

URS0000DB97B2_9606 lncRNA 2203 1

Ensembl: ENST00000649239 (view in UCSC) ,

URS0000EEF90E_9606 lncRNA 1895 1

Ensembl: ENST00000659335 (view in UCSC) ,

URS0000EEC684_9606 lncRNA 1797 1

Ensembl: ENST00000665279 (view in UCSC) ,

URS0000EECE2A_9606 lncRNA 1630 1

Ensembl: ENST00000653073 (view in UCSC) ,

LINC00840 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for LINC00840 Gene

1 NCBI additional mRNA sequence :

Alternative Splicing Database (ASD) splice patterns (SP) for LINC00840 Gene

No ASD Table

Relevant External Links for LINC00840 Gene

GeneLoc Exon Structure for
LINC00840

Expression for LINC00840 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LINC00840 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LINC00840

SOURCE GeneReport for Unigene cluster for LINC00840 Gene:

Hs.462615
genes like me logo Genes that share expression patterns with LINC00840: view

No data available for 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 LINC00840 Gene

Orthologs for LINC00840 Gene

Evolution for LINC00840 Gene

ENSEMBL:
Gene Tree for LINC00840 (if available)
TreeFam:
Gene Tree for LINC00840 (if available)

No data available for Orthologs for LINC00840 Gene

Paralogs for LINC00840 Gene

No data available for Paralogs for LINC00840 Gene

Variants for LINC00840 Gene

Additional dbSNP identifiers (rs#s) for LINC00840 Gene

Structural Variations from Database of Genomic Variants (DGV) for LINC00840 Gene

Variant ID Type Subtype PubMed ID
esv2667357 CNV deletion 23128226
esv3623051 CNV loss 21293372
esv3891796 CNV loss 25118596

Additional Variant Information for LINC00840 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC00840

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 LINC00840 Gene

Disorders for LINC00840 Gene

Additional Disease Information for LINC00840

No disorders were found for LINC00840 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LINC00840 Gene

Publications for LINC00840 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3

Products for LINC00840 Gene

Sources for LINC00840 Gene