Aliases for LINC00954 Gene

Subcategory (RNA class) for LINC00954 Gene

lncRNA

Number of RNA Genes sources:

3 / 14

Aliases for LINC00954 Gene

  • Long Intergenic Non-Protein Coding RNA 954 2 3 5
  • LINC00954 2 168
  • HSALNG0013382 167
  • NONHSAG027140 92

External Ids for LINC00954 Gene

Previous GeneCards Identifiers for LINC00954 Gene

  • GC02P020070

Summaries for LINC00954 Gene

GeneCards Summary for LINC00954 Gene

LINC00954 (Long Intergenic Non-Protein Coding RNA 954) is an RNA Gene, and is affiliated with the lncRNA class.

Additional gene information for LINC00954 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 LINC00954 Gene

Genomics for LINC00954 Gene

GeneHancer (GH) Regulatory Elements for LINC00954 Gene

Promoters and enhancers for LINC00954 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
GH02J019868 Promoter/Enhancer 1.3 Ensembl ENCODE CraniofacialAtlas 500.7 +0.1 147 1.6 USF1 POLR2A PHF8 MBD1 MNT KLF9 THRB SPI1 TAF1 AGO2 LINC00954 MATN3 lnc-TTC32-1
GH02J019866 Enhancer 0.2 Ensembl 500.7 -2.0 -1953 0.6 LINC00954 HSALNG0013380
GH02J020442 Promoter/Enhancer 2.1 Ensembl ENCODE CraniofacialAtlas dbSUPER 18.9 +579.2 579176 10.3 EP300 ZNF217 CTCF ZSCAN5C NRF1 TCF12 POLR2G SP1 NCOR1 PHF8 RHOB lnc-PUM2-1 PUM2 LAPTM4A LINC00954 ENSG00000228950 TTC32 GDF7
GH02J020205 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 10.3 +347.1 347130 21.3 EP300 ZNF217 CTCF NRF1 TCF12 POLR2G USF1 NCOR1 NONO JUND SDC1 PUM2 RNU7-113P LAPTM4A RNU6-961P LINC00954 ENSG00000228950 RHOB lnc-PUM2-3 lnc-RHOB-11
GH02J019346 Promoter/Enhancer 2.3 FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 10.3 -519.8 -519760 4.6 FOXK2 ZBTB40 ZNF217 CTCF SIN3A NRF1 POLR2G SP1 GTF2E2 PHF8 MIR4757 LINC01376 LAPTM4A LINC00954 OSR1 lnc-TTC32-2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC00954 on UCSC Golden Path with GeneCards custom track

Genomic Locations for LINC00954 Gene

Genomic Locations for LINC00954 Gene
chr2:19,868,854-19,896,072
(GRCh38/hg38)
Size:
27,219 bases
Orientation:
Plus strand
chr2:20,068,615-20,084,808
(GRCh37/hg19)
Size:
16,194 bases
Orientation:
Plus strand

Genomic View for LINC00954 Gene

Genes around LINC00954 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LINC00954 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC00954 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC00954 Gene

Proteins for LINC00954 Gene

Post-translational modifications for LINC00954 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC00954 Gene

Domains & Families for LINC00954 Gene

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LINC00954 Gene

Function for LINC00954 Gene

Phenotypes From GWAS Catalog for LINC00954 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 LINC00954 Gene

Localization for LINC00954 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 LINC00954 Gene

Pathways & Interactions for LINC00954 Gene

PathCards logo

SuperPathways for LINC00954 Gene

No Data Available
;

Gene Ontology (GO) - Biological Process for LINC00954 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for LINC00954 Gene

Drugs & Compounds for LINC00954 Gene

No Compound Related Data Available

Transcripts for LINC00954 Gene

mRNA/cDNA for LINC00954 Gene

24 RNACentral transcripts :
1 REFSEQ mRNAs :
4 NCBI additional mRNA sequence :
9 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
4 NONCODE transcripts :
4 LncBook transcripts :
17 LNCipedia transcripts :

Alternative Splicing Database (ASD) splice patterns (SP) for LINC00954 Gene

No ASD Table

Relevant External Links for LINC00954 Gene

GeneLoc Exon Structure for
LINC00954

Expression for LINC00954 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LINC00954 Gene

mRNA differential expression in normal tissues according to GTEx for LINC00954 Gene

This gene is overexpressed in Pituitary (x6.2) and Whole Blood (x5.4).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LINC00954

genes like me logo Genes that share expression patterns with LINC00954: 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 LINC00954 Gene

Orthologs for LINC00954 Gene

Evolution for LINC00954 Gene

ENSEMBL:
Gene Tree for LINC00954 (if available)
TreeFam:
Gene Tree for LINC00954 (if available)

No data available for Orthologs for LINC00954 Gene

Paralogs for LINC00954 Gene

No data available for Paralogs for LINC00954 Gene

Variants for LINC00954 Gene

Additional dbSNP identifiers (rs#s) for LINC00954 Gene

Structural Variations from Database of Genomic Variants (DGV) for LINC00954 Gene

Variant ID Type Subtype PubMed ID
esv29979 CNV loss 17803354
esv3305520 CNV mobile element insertion 20981092
esv3376794 CNV insertion 20981092
nsv581155 CNV gain 21841781

Additional Variant Information for LINC00954 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC00954

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 LINC00954 Gene

Disorders for LINC00954 Gene

Additional Disease Information for LINC00954

No disorders were found for LINC00954 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LINC00954 Gene

Publications for LINC00954 Gene

  1. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K … Sugano S (Genome research 2006) 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

Products for LINC00954 Gene

Sources for LINC00954 Gene