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Aliases for LINC00958 Gene

Subcategory (RNA class) for LINC00958 Gene

non-coding RNA

Quality Score for this RNA gene is

13

Aliases for LINC00958 Gene

  • Long Intergenic Non-Protein Coding RNA 958 2 3 5
  • CTC-497E21.4 3
  • BLACAT2 3

External Ids for LINC00958 Gene

Previous GeneCards Identifiers for LINC00958 Gene

  • GC11M012985
  • GC11M012963

Summaries for LINC00958 Gene

GeneCards Summary for LINC00958 Gene

LINC00958 (Long Intergenic Non-Protein Coding RNA 958) is an RNA Gene, and is affiliated with the non-coding RNA class. Diseases associated with LINC00958 include Bladder Cancer and Breast Cancer.

Additional gene information for LINC00958 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 LINC00958 Gene

Genomics for LINC00958 Gene

GeneHancer (GH) Regulatory Elements for LINC00958 Gene

Promoters and enhancers for LINC00958 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
GH11J012988 Promoter/Enhancer 1.5 Ensembl ENCODE 640.6 +0.3 309 1.3 ZFX CC2D1A CBFA2T2 MLLT1 GTF2F1 BACH1 TRIM24 MZF1 ZNF639 EGR1 LINC00958 GC11M012980
GH11J013007 Promoter/Enhancer 1.7 Ensembl ENCODE dbSUPER 21.6 -20.8 -20758 6.5 ZNF652 SP1 ELF3 CEBPG RERE ZNF687 MAFK TFE3 RELA SP7 RASSF10-DT RASSF10 LINC00958 ENSG00000252329 GC11P013015
GH11J013065 Enhancer 0.9 Ensembl ENCODE 16.4 -76.1 -76077 0.9 CEBPG ZNF644 CEBPA GATAD2A RXRB SOX13 TCF7 CEBPB HNF4A NFIL3 LINC00958 LOC105376558 GC11P013015 ENSG00000255558
GH11J013108 Enhancer 1.2 Ensembl ENCODE dbSUPER 8 -121.0 -121003 3.4 CBFA2T2 NKRF ZNF680 IKZF1 POLR2A IKZF2 HDAC1 PKNOX1 SP1 RFX1 LINC00958 BTBD10 LOC105376558 ENSG00000255558 GC11M013109 GC11P013015
GH11J013294 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 5.2 -310.0 -309953 18.6 ELF3 CEBPG ZNF687 MAFK TFE3 SP7 MLLT1 ZNF644 IKZF1 RXRA ARNTL LINC00958 GC11P013282 GC11P013334
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC00958 on UCSC Golden Path with GeneCards custom track

Genomic Locations for LINC00958 Gene

Genomic Locations for LINC00958 Gene
chr11:12,961,842-12,989,548
(GRCh38/hg38)
Size:
27,707 bases
Orientation:
Minus strand
chr11:12,984,057-13,011,095
(GRCh37/hg19)
Size:
27,039 bases
Orientation:
Minus strand

Genomic View for LINC00958 Gene

Genes around LINC00958 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LINC00958 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC00958 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC00958 Gene

Proteins for LINC00958 Gene

Post-translational modifications for LINC00958 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC00958 Gene

Domains & Families for LINC00958 Gene

Gene Families for LINC00958 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LINC00958: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for LINC00958 Gene

Function for LINC00958 Gene

Phenotypes From GWAS Catalog for LINC00958 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 LINC00958 Gene

Localization for LINC00958 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 LINC00958 Gene

Pathways & Interactions for LINC00958 Gene

PathCards logo

SuperPathways for LINC00958 Gene

No Data Available

Interacting Proteins for LINC00958 Gene

Gene Ontology (GO) - Biological Process for LINC00958 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LINC00958 Gene

Drugs & Compounds for LINC00958 Gene

No Compound Related Data Available

Transcripts for LINC00958 Gene

mRNA/cDNA for LINC00958 Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for LINC00958 Gene

No ASD Table

Relevant External Links for LINC00958 Gene

GeneLoc Exon Structure for
LINC00958
ECgene alternative splicing isoforms for
LINC00958

Expression for LINC00958 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LINC00958 Gene

mRNA differential expression in normal tissues according to GTEx for LINC00958 Gene

This gene is overexpressed in Esophagus - Mucosa (x17.1), Kidney - Cortex (x6.1), Skin - Not Sun Exposed (Suprapubic) (x5.3), Vagina (x4.6), and Skin - Sun Exposed (Lower leg) (x4.2).

NURSA nuclear receptor signaling pathways regulating expression of LINC00958 Gene:

LINC00958
genes like me logo Genes that share expression patterns with LINC00958: 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 LINC00958 Gene

Orthologs for LINC00958 Gene

Evolution for LINC00958 Gene

ENSEMBL:
Gene Tree for LINC00958 (if available)
TreeFam:
Gene Tree for LINC00958 (if available)

No data available for Orthologs for LINC00958 Gene

Paralogs for LINC00958 Gene

No data available for Paralogs for LINC00958 Gene

Variants for LINC00958 Gene

Sequence variations from dbSNP and Humsavar for LINC00958 Gene

SNP ID Clin Chr 11 pos Variation AA Info Type
rs1000004408 -- 12,985,311(-) T/C intron_variant
rs1000117088 -- 12,979,137(-) A/C downstream_transcript_variant
rs1000125631 -- 12,988,058(-) C/T intron_variant
rs1000237114 -- 12,979,524(-) A/G downstream_transcript_variant
rs1000288125 -- 12,985,079(-) G/A intron_variant

Structural Variations from Database of Genomic Variants (DGV) for LINC00958 Gene

Variant ID Type Subtype PubMed ID
esv275080 CNV gain+loss 21479260
esv3625395 CNV gain 21293372
esv3625402 CNV gain 21293372

Additional Variant Information for LINC00958 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC00958

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for LINC00958 Gene

Disorders for LINC00958 Gene

MalaCards: The human disease database

(2) MalaCards diseases for LINC00958 Gene - From: LncRNADisease, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
bladder cancer
  • bladder cancer, somatic
breast cancer
  • breast tumor
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for LINC00958

genes like me logo Genes that share disorders with LINC00958: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LINC00958 Gene

Publications for LINC00958 Gene

  1. Long Noncoding RNA LINC00958 Accelerates Gliomagenesis Through Regulating miR-203/CDK2. (PMID: 29570358) Guo E … Zheng J (DNA and cell biology 2018) 2 3 58
  2. Profiling of long non-coding RNAs identifies LINC00958 and LINC01296 as candidate oncogenes in bladder cancer. (PMID: 28341852) Seitz AK … Dyrskjøt L (Scientific reports 2017) 2 3 58
  3. Long noncoding RNA BLACAT2 promotes bladder cancer-associated lymphangiogenesis and lymphatic metastasis. (PMID: 29355840) He W … Lin T (The Journal of clinical investigation 2018) 3 58
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 58

Products for LINC00958 Gene

Sources for LINC00958 Gene

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