Aliases for LINC02872 Gene

Subcategory (RNA class) for LINC02872 Gene

lncRNA

Number of RNA Genes sources:

2 / 14

Aliases for LINC02872 Gene

  • Long Intergenic Non-Protein Coding RNA 2872 2 3
  • Chromosome 9 Open Reading Frame 170 2 5
  • C9orf170 3 5
  • Uncharacterized Protein C9orf170 3
  • HSALNG0072448 167
  • Lnc-DAPK1-7 168
  • LINC02872 2

External Ids for LINC02872 Gene

Previous HGNC Symbols for LINC02872 Gene

  • C9orf170

Summaries for LINC02872 Gene

GeneCards Summary for LINC02872 Gene

LINC02872 (Long Intergenic Non-Protein Coding RNA 2872) is an RNA Gene, and is affiliated with the lncRNA class.

Additional gene information for LINC02872 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 LINC02872 Gene

Genomics for LINC02872 Gene

GeneHancer (GH) Regulatory Elements for LINC02872 Gene

Promoters and enhancers for LINC02872 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
GH09J087146 Promoter/Enhancer 1.4 Ensembl ENCODE CraniofacialAtlas dbSUPER 508.9 +0.0 46 3.4 CTCF CREB3L1 GABPA KDM5A YY1 POLR2G PHF8 POLR2A ZBTB33 GABPB1 LINC02872 GAS1RR FJ601678-159
GH09J087266 Enhancer 1.5 FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 14.3 +120.9 120881 6.2 RBAK FOS ZIC2 TRIM28 ATF2 RBM25 NR2F2 KLF9 WT1 CREB1 LINC02872 GAS1 ENSG00000212421 lnc-GAS1-4 LOC105376126
GH09J087370 Enhancer 1.2 Ensembl ENCODE dbSUPER 10 +225.0 224956 7.2 CTCF TCF12 ZIC2 ZNF423 EP300 FOXA2 NR2F2 RELA FOS FOSL2 DAPK1 LINC02872 lnc-GAS1-1 LOC105376127 lnc-GAS1-5
GH09J087122 Enhancer 0.7 Ensembl ENCODE 12.1 -25.2 -25244 2 JUND FOS USF1 STAT3 ZNF529 POLR2A SIN3A RAD21 USF2 TAF1 LINC02872 ENSG00000212421 GAS1RR piR-33614-278 LOC494127 lnc-GAS1-3
GH09J087259 Enhancer 1.2 Ensembl ENCODE CraniofacialAtlas dbSUPER 6.5 +111.2 111198 1.3 MEF2B BATF IRF4 EBF1 ZNF189 GLIS1 TBX21 SMARCA4 ZNF34 JUNB ENSG00000212421 LINC02872 lnc-GAS1-4 LOC105376126 piR-36756-089
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC02872 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for LINC02872

Genomic Locations for LINC02872 Gene

Genomic Locations for LINC02872 Gene
chr9:87,148,644-87,159,726
(GRCh38/hg38)
Size:
11,083 bases
Orientation:
Plus strand
chr9:89,763,559-89,774,641
(GRCh37/hg19)
Size:
11,083 bases
Orientation:
Plus strand

Genomic View for LINC02872 Gene

Genes around LINC02872 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LINC02872 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC02872 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC02872 Gene

Proteins for LINC02872 Gene

Post-translational modifications for LINC02872 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC02872 Gene

Domains & Families for LINC02872 Gene

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LINC02872 Gene

Function for LINC02872 Gene

Phenotypes From GWAS Catalog for LINC02872 Gene

Phenotypes for LINC02872 Gene

GenomeRNAi human phenotypes for LINC02872:
genes like me logo Genes that share phenotypes with LINC02872: view

Clone 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 LINC02872 Gene

Localization for LINC02872 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 LINC02872 gene
Compartment Confidence
mitochondrion 3
extracellular 0

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 LINC02872 Gene

Pathways & Interactions for LINC02872 Gene

PathCards logo

SuperPathways for LINC02872 Gene

No Data Available
;

Gene Ontology (GO) - Biological Process for LINC02872 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for LINC02872 Gene

Drugs & Compounds for LINC02872 Gene

No Compound Related Data Available

Transcripts for LINC02872 Gene

mRNA/cDNA for LINC02872 Gene

2 RNACentral transcripts :
1 REFSEQ mRNAs :
3 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
1 LncBook transcripts :
1 LNCipedia transcripts :

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LINC02872 Gene

No ASD Table

Relevant External Links for LINC02872 Gene

GeneLoc Exon Structure for
LINC02872

Expression for LINC02872 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LINC02872

SOURCE GeneReport for Unigene cluster for LINC02872 Gene:

Hs.657740
No Expression Related Data Available

No data available for mRNA expression in normal human tissues , 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 LINC02872 Gene

Orthologs for LINC02872 Gene

This gene was present in the common ancestor of human and chimp.

Orthologs for LINC02872 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia C9H9orf170 30
  • 97.8 (n)
C9orf170 31
  • 93 (a)
OneToOne
Species where no ortholog for LINC02872 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for LINC02872 Gene

ENSEMBL:
Gene Tree for LINC02872 (if available)
TreeFam:
Gene Tree for LINC02872 (if available)

Paralogs for LINC02872 Gene

No data available for Paralogs for LINC02872 Gene

Variants for LINC02872 Gene

Additional dbSNP identifiers (rs#s) for LINC02872 Gene

Structural Variations from Database of Genomic Variants (DGV) for LINC02872 Gene

Variant ID Type Subtype PubMed ID
nsv466430 CNV loss 19166990
nsv614785 CNV loss 21841781

Variation tolerance for LINC02872 Gene

Residual Variation Intolerance Score: 71.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.39; 8.67% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LINC02872 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC02872

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for LINC02872 Gene

Disorders for LINC02872 Gene

Additional Disease Information for LINC02872

No disorders were found for LINC02872 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LINC02872 Gene

Publications for LINC02872 Gene

  1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 54
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 54
  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 54

No data available for Mastermind for LINC02872 Gene

Products for LINC02872 Gene

Sources for LINC02872 Gene