Aliases for LINC00842 Gene

Subcategory (RNA class) for LINC00842 Gene

lncRNA

Number of RNA Genes sources:

1 / 17

Aliases for LINC00842 Gene

  • Long Intergenic Non-Protein Coding RNA 842 2 3 5
  • LINC00842 2 5 165

External Ids for LINC00842 Gene

Previous GeneCards Identifiers for LINC00842 Gene

  • GC10M047098
  • GC10M047013
  • GC10P046377

Summaries for LINC00842 Gene

GeneCards Summary for LINC00842 Gene

LINC00842 (Long Intergenic Non-Protein Coding RNA 842) is an RNA Gene, and is affiliated with the lncRNA class. Gene Ontology (GO) annotations related to this gene include calcium ion binding and calcium-dependent phospholipid binding.

Additional gene information for LINC00842 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 LINC00842 Gene

Genomics for LINC00842 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LINC00842 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
GH10J046395 Promoter/Enhancer 1.3 EPDnew Ensembl ENCODE 600.7 -0.5 -483 3.8 PRDM10 ZNF692 PATZ1 CTCF SP2 EGR1 CEBPB ZSCAN29 ZBTB26 ZFHX2 LINC00842 ANXA8L1 piR-39244-001 lnc-NPY4R-1 ENSG00000285402 NPY4R
GH10J046440 Enhancer 1 Ensembl ENCODE 10 +43.8 43839 3.2 PRDM10 RFX1 FOXA1 ZNF776 ZIC2 ZNF24 DPF2 ZNF341 FOXJ2 CBX3 AGAP4 ENSG00000229227 PARGP1 LINC00842 piR-50444-044 LOC107987152 NPY4R ANXA8L1 ENSG00000285402
GH10J046313 Enhancer 0.8 Ensembl ENCODE 11 -81.6 -81561 10 EGR1 CTBP1 ZNF316 ZNF217 TRIM24 NFIC ZFHX2 DPF2 ELF1 TAL1 ANXA8L1 LINC00842 SYT15 GDF10 NONHSAG005814.2 piR-32907-001 ANTXRL
GH10J046468 Enhancer 0.9 FANTOM5 ENCODE 6.7 +70.2 70173 1.2 CTCF PRDM10 KDM1A JUND REST RAD21 ZBTB44 SP1 SMARCC1 ZNF444 piR-32307-001 LINC00842 GPRIN2 NPY4R ANXA8L1 ENSG00000285402
GH10J046322 Enhancer 0.5 Ensembl 11.8 -72.3 -72261 8.2 CTCF ZIC2 RAD21 SMC3 ZNF335 KLF17 EGR2 ZBTB8A ANXA8L1 LINC00842 GDF10 piR-32907-001 NONHSAG005814.2 ANTXRL
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC00842 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for LINC00842 Gene

Genomic Locations for LINC00842 Gene
chr10:46,398,362-46,453,306
(GRCh38/hg38)
Size:
54,945 bases
Orientation:
Plus strand
chr10:47,011,753-47,174,018
(GRCh37/hg19)
Size:
162,266 bases
Orientation:
Minus strand

Genomic View for LINC00842 Gene

Genes around LINC00842 on UCSC Golden Path with GeneCards custom track
LINC00842 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Cytogenetic band:
LINC00842 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC00842 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC00842 Gene

Proteins for LINC00842 Gene

Post-translational modifications for LINC00842 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC00842 Gene

Domains & Families for LINC00842 Gene

Gene Families for LINC00842 Gene

Suggested Antigen Peptide Sequences for LINC00842 Gene

GenScript: Design optimal peptide antigens:
  • LOC643650 protein (Q8N4X2_HUMAN)
genes like me logo Genes that share domains with LINC00842: view

No data available for Protein Domains , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LINC00842 Gene

Function for LINC00842 Gene

Phenotypes From GWAS Catalog for LINC00842 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 LINC00842 Gene

Localization for LINC00842 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 LINC00842 Gene

Pathways & Interactions for LINC00842 Gene

PathCards logo

SuperPathways for LINC00842 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LINC00842 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for LINC00842 Gene

Drugs & Compounds for LINC00842 Gene

No Compound Related Data Available

Transcripts for LINC00842 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for LINC00842 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS000075E9B4_9606 lncRNA 2872 4

HGNC: 44989,

RefSeq: NR_033957,

Ensembl: ENST00000614356 (view in UCSC) ,

LNCipedia: LINC00842:23,

LINC00842 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for LINC00842 Gene

1 NCBI additional mRNA sequence :

Alternative Splicing Database (ASD) splice patterns (SP) for LINC00842 Gene

No ASD Table

Relevant External Links for LINC00842 Gene

GeneLoc Exon Structure for
LINC00842

Expression for LINC00842 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LINC00842 Gene

mRNA differential expression in normal tissues according to GTEx for LINC00842 Gene

This gene is overexpressed in Skin - Not Sun Exposed (Suprapubic) (x7.6), Colon - Sigmoid (x6.3), and Skin - Sun Exposed (Lower leg) (x5.2).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LINC00842

SOURCE GeneReport for Unigene cluster for LINC00842 Gene:

Hs.744313
genes like me logo Genes that share expression patterns with LINC00842: 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 LINC00842 Gene

Orthologs for LINC00842 Gene

Evolution for LINC00842 Gene

ENSEMBL:
Gene Tree for LINC00842 (if available)
TreeFam:
Gene Tree for LINC00842 (if available)

No data available for Orthologs for LINC00842 Gene

Paralogs for LINC00842 Gene

No data available for Paralogs for LINC00842 Gene

Variants for LINC00842 Gene

Additional dbSNP identifiers (rs#s) for LINC00842 Gene

Structural Variations from Database of Genomic Variants (DGV) for LINC00842 Gene

Variant ID Type Subtype PubMed ID
dgv1106n54 CNV gain 21841781
dgv118e214 CNV gain 21293372
dgv147n67 CNV gain 20364138
dgv148n67 CNV gain 20364138
dgv218e212 CNV loss 25503493
dgv219e212 CNV gain 25503493
dgv223e212 CNV loss 25503493
dgv224e212 CNV gain 25503493
dgv227e212 CNV loss 25503493
dgv22e55 CNV gain 17911159
dgv409e59 CNV duplication 20981092
dgv416e59 CNV duplication 20981092
dgv440n106 CNV duplication 24896259
dgv734n100 CNV gain 25217958
dgv738n100 CNV loss 25217958
dgv740n100 CNV gain+loss 25217958
dgv743n100 CNV gain 25217958
dgv752n100 CNV loss 25217958
dgv753n100 CNV gain 25217958
dgv763n100 CNV gain 25217958
dgv764n100 CNV loss 25217958
dgv765n100 CNV loss 25217958
dgv767n100 CNV gain 25217958
dgv781n100 CNV loss 25217958
dgv783n100 CNV gain 25217958
dgv800n100 CNV gain 25217958
dgv801n100 CNV gain 25217958
dgv803n100 CNV gain 25217958
dgv806n100 CNV loss 25217958
dgv807n100 CNV gain 25217958
dgv811n100 CNV gain 25217958
dgv812n100 CNV loss 25217958
dgv813n100 CNV loss 25217958
dgv814n100 CNV loss 25217958
dgv815n100 CNV gain+loss 25217958
dgv817n100 CNV loss 25217958
dgv818n100 CNV loss 25217958
dgv819n100 CNV gain+loss 25217958
dgv820n100 CNV loss 25217958
dgv821n100 CNV gain 25217958
dgv822n100 CNV loss 25217958
esv1003227 CNV loss 20482838
esv2596706 CNV deletion 19546169
esv2632472 CNV gain 19546169
esv2668279 CNV deletion 23128226
esv2736152 CNV deletion 23290073
esv2736240 CNV deletion 23290073
esv2756706 CNV loss 18971310
esv2857124 CNV duplication 24192839
esv3263051 CNV deletion 24192839
esv3302969 CNV tandem duplication 20981092
esv3333912 CNV duplication 20981092
esv3334221 CNV duplication 20981092
esv3364982 CNV duplication 20981092
esv3409442 CNV duplication 20981092
esv3434241 CNV duplication 20981092
esv3546243 CNV deletion 23714750
esv3577105 CNV gain 25503493
esv3578852 CNV loss 25503493
esv3578853 CNV loss 25503493
esv3584617 CNV loss 24956385
esv3623121 CNV loss 21293372
esv3891799 CNV gain 25118596
esv6186 CNV loss 19470904
esv995135 CNV loss 20482838
nsv1036434 CNV loss 25217958
nsv1039914 CNV loss 25217958
nsv1041060 CNV gain+loss 25217958
nsv1043173 CNV gain 25217958
nsv1044044 CNV gain+loss 25217958
nsv1046878 CNV gain+loss 25217958
nsv1047088 CNV loss 25217958
nsv1050225 CNV gain+loss 25217958
nsv1052616 CNV gain 25217958
nsv1052733 CNV loss 25217958
nsv1152446 CNV duplication 26484159
nsv1161950 CNV duplication 26073780
nsv437116 CNV loss 16327808
nsv511437 CNV loss 21212237
nsv550723 CNV gain 21841781
nsv550726 CNV loss 21841781
nsv820817 CNV duplication 20802225
nsv825369 CNV gain 20364138
nsv831853 CNV gain 17160897
nsv947929 CNV duplication 23825009
nsv947930 CNV duplication 23825009
nsv947931 CNV duplication 23825009
nsv951576 CNV duplication 24416366

Additional Variant Information for LINC00842 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC00842

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 LINC00842 Gene

Disorders for LINC00842 Gene

No disorders were found for LINC00842 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LINC00842 Gene

Publications for LINC00842 Gene

  1. Long Noncoding RNA ELIT-1 Acts as a Smad3 Cofactor to Facilitate TGFβ/Smad Signaling and Promote Epithelial-Mesenchymal Transition. (PMID: 30952633) Sakai S … Kitagawa M (Cancer research 2019) 3
  2. VIRMA mediates preferential m6A mRNA methylation in 3'UTR and near stop codon and associates with alternative polyadenylation. (PMID: 29507755) Yue Y … Liu J (Cell discovery 2018) 3
  3. 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) 3

Products for LINC00842 Gene

Sources for LINC00842 Gene