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Aliases for LINC00842 Gene

Subcategory (RNA class) for LINC00842 Gene

non-coding RNA

Quality Score for this RNA gene is

13

Aliases for LINC00842 Gene

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

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 non-coding RNA class. Diseases associated with LINC00842 include Astrocytoma. 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 , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LINC00842 Gene

Genomics for LINC00842 Gene

GeneHancer (GH) Regulatory Elements for LINC00842 Gene

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 1.2 Ensembl ENCODE 600.7 -0.3 -283 4.2 EGR1 ZBTB8A PRDM10 ATF1 CTCF PATZ1 ZNF692 CEBPB SP2 ZBTB26 PIR31302 LINC00842 ANXA8L1 ENSG00000285402
GH10J046313 Enhancer 0.9 Ensembl ENCODE 11.8 -77.3 -77261 18.2 CBFA2T2 MAFK ZBTB8A ZIC2 CTCF CTBP1 ZNF316 TRIM24 RAD21 ZNF217 ANXA8L1 LINC00842 SYT15 GDF10 PIR43906 ANTXRL
GH10J046440 Enhancer 1 Ensembl ENCODE 10 +43.7 43739 2.6 CBFA2T2 NFIB MCM2 TRIM24 KLF14 EGR1 GLIS2 DPF2 ZBTB8A ZNF544 AGAP4 ENSG00000229227 PARGP1 LINC00842 PIR43306 HNRNPA1P33 ENSG00000285402
GH10J046468 Enhancer 1 FANTOM5 ENCODE 6.7 +70.2 70173 1.2 CC2D1A CTCF RAD21 ARID2 PRDM10 REST SMARCC1 ZBTB44 SP1 ZNF580 PIR43306 LINC00842 GPRIN2 NPY4R ENSG00000285402
GH10J046450 Enhancer 0.7 Ensembl ENCODE 8.4 +52.7 52666 1.7 NFIB NFIC ZFHX2 NFIA ZFX LCORL EGR2 LINC00842 PIR43306 HNRNPA1P33 ENSG00000285402
- 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 UCSC Golden Path with GeneCards custom track

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

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

Suggested Antigen Peptide Sequences for LINC00842 Gene

GenScript: Design optimal peptide antigens:
  • LOC643650 protein (Q8N4X2_HUMAN)

Graphical View of Domain Structure for InterPro Entry

No data available for Gene Families , Protein Domains and UniProtKB/Swiss-Prot for LINC00842 Gene

Function for LINC00842 Gene

Phenotypes From GWAS Catalog for LINC00842 Gene

Animal Model Products

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

Interacting Proteins for LINC00842 Gene

Gene Ontology (GO) - Biological Process for LINC00842 Gene

None

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

Drugs & Compounds for LINC00842 Gene

No Compound Related Data Available

Transcripts for LINC00842 Gene

mRNA/cDNA for LINC00842 Gene

(1) Additional mRNA sequences :
(1) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
(1) RNA Central transcripts :

Unigene Clusters for LINC00842 Gene

Long intergenic non-protein coding RNA 842:
Representative Sequences:

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

No ASD Table

Relevant External Links for LINC00842 Gene

GeneLoc Exon Structure for
LINC00842
ECgene alternative splicing isoforms for
LINC00842

Expression for LINC00842 Gene

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

NURSA nuclear receptor signaling pathways regulating expression of LINC00842 Gene:

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

Sequence variations from dbSNP and Humsavar for LINC00842 Gene

SNP ID Clin Chr 10 pos Variation AA Info Type
rs10128143 -- 46,403,742(+) A/G intron_variant
rs10128144 -- 46,403,576(+) A/G intron_variant
rs10128147 -- 46,403,457(+) A/G intron_variant
rs10128188 -- 46,403,597(+) T/C intron_variant
rs10128189 -- 46,403,536(+) T/G intron_variant

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 and Variation tolerance for LINC00842 Gene

Disorders for LINC00842 Gene

MalaCards: The human disease database

(1) MalaCards diseases for LINC00842 Gene - From: LncRNADisease

Disorder Aliases PubMed IDs
astrocytoma
  • astrocytic tumor
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for LINC00842

genes like me logo Genes that share disorders with LINC00842: view

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

Publications for LINC00842 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) 3 58

Products for LINC00842 Gene

Sources for LINC00842 Gene

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