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Aliases for LINC00598 Gene

Subcategory (RNA class) for LINC00598 Gene

non-coding RNA

Quality Score for this RNA gene is

13

Aliases for LINC00598 Gene

  • Long Intergenic Non-Protein Coding RNA 598 2 3 5
  • Twelve-Thirteen Translocation Leukemia Transcript (Non-Protein Coding) 2 3
  • LncFOXO1 3

External Ids for LINC00598 Gene

Previous GeneCards Identifiers for LINC00598 Gene

  • GC13M040923
  • GC13M040347

Summaries for LINC00598 Gene

GeneCards Summary for LINC00598 Gene

LINC00598 (Long Intergenic Non-Protein Coding RNA 598) is an RNA Gene, and is affiliated with the non-coding RNA class. Diseases associated with LINC00598 include Breast Cancer.

Additional gene information for LINC00598 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 LINC00598 Gene

Genomics for LINC00598 Gene

GeneHancer (GH) Regulatory Elements for LINC00598 Gene

Promoters and enhancers for LINC00598 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
GH13J040535 Enhancer 1.1 Ensembl ENCODE 650.7 -1.0 -992 2.2 FOXA2 ARID4B FEZF1 ETS1 YY1 SLC30A9 FOS RXRA SP5 REST LINC00598 LINC00548 MTRF1 GC13P040539 FOXO1
GH13J040534 Enhancer 0.7 ENCODE 650.7 +1.3 1318 0.9 SOX13 SAP130 CEBPG ZNF644 RARA TEAD3 GATAD2A SOX5 TEAD1 HLF LINC00598 LINC00548 GC13P040529 FOXO1
GH13J039575 Enhancer 0.6 ENCODE 5.4 +959.9 959917 0.8 PKNOX1 BCL11A IKZF1 BACH1 EBF1 DPF2 BATF IKZF2 RUNX3 LINC00598 LHFPL6 GC13M039419
GH13J040502 Enhancer 1.3 FANTOM5 Ensembl ENCODE 0.3 +31.6 31582 2.6 FOXA2 MLX ARID4B SIN3A DMAP1 ETS1 YY1 TCF12 ATF7 FOS GC13P040487 GC13P040529 LINC00548 LINC00598 FOXO1
GH13J040517 Enhancer 0.8 ENCODE 0.4 +17.5 17486 1.2 SMAD1 ZFP64 STAT5A BMI1 BATF IRF4 ZNF207 ATF7 ETV6 IKZF2 GC13P040529 LINC00548 LINC00598 GC13P040487 FOXO1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC00598 on UCSC Golden Path with GeneCards custom track

Genomic Locations for LINC00598 Gene

Genomic Locations for LINC00598 Gene
chr13:40,079,106-40,535,807
(GRCh38/hg38)
Size:
456,702 bases
Orientation:
Minus strand
chr13:40,921,269-41,055,143
(GRCh37/hg19)
Size:
133,875 bases
Orientation:
Minus strand

Genomic View for LINC00598 Gene

Genes around LINC00598 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LINC00598 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC00598 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC00598 Gene

Proteins for LINC00598 Gene

Post-translational modifications for LINC00598 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC00598 Gene

Domains & Families for LINC00598 Gene

Gene Families for LINC00598 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LINC00598: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for LINC00598 Gene

Function for LINC00598 Gene

Phenotypes From GWAS Catalog for LINC00598 Gene

miRNA for LINC00598 Gene

miRTarBase miRNAs that target LINC00598

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LINC00598 Gene

Localization for LINC00598 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 LINC00598 Gene

Pathways & Interactions for LINC00598 Gene

SuperPathways for LINC00598 Gene

No Data Available

Interacting Proteins for LINC00598 Gene

Gene Ontology (GO) - Biological Process for LINC00598 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LINC00598 Gene

Drugs & Compounds for LINC00598 Gene

No Compound Related Data Available

Transcripts for LINC00598 Gene

mRNA/cDNA for LINC00598 Gene

(7) Additional mRNA sequences :
(16) Ensembl transcripts including schematic representations, and UCSC links where relevant :
(19) RNA Central transcripts :

Unigene Clusters for LINC00598 Gene

Long intergenic non-protein coding RNA 598:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LINC00598 Gene

No ASD Table

Relevant External Links for LINC00598 Gene

GeneLoc Exon Structure for
LINC00598
ECgene alternative splicing isoforms for
LINC00598

Expression for LINC00598 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LINC00598 Gene

mRNA differential expression in normal tissues according to GTEx for LINC00598 Gene

This gene is overexpressed in Testis (x21.9).

NURSA nuclear receptor signaling pathways regulating expression of LINC00598 Gene:

LINC00598

SOURCE GeneReport for Unigene cluster for LINC00598 Gene:

Hs.287664
genes like me logo Genes that share expression patterns with LINC00598: 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 LINC00598 Gene

Orthologs for LINC00598 Gene

Evolution for LINC00598 Gene

ENSEMBL:
Gene Tree for LINC00598 (if available)
TreeFam:
Gene Tree for LINC00598 (if available)

No data available for Orthologs for LINC00598 Gene

Paralogs for LINC00598 Gene

No data available for Paralogs for LINC00598 Gene

Variants for LINC00598 Gene

Sequence variations from dbSNP and Humsavar for LINC00598 Gene

SNP ID Clin Chr 13 pos Variation AA Info Type
rs1000067662 -- 40,365,330(-) A/G genic_downstream_transcript_variant, intron_variant
rs1000087889 -- 40,464,541(-) G/A intron_variant
rs1000096818 -- 40,365,640(-) T/C genic_downstream_transcript_variant, intron_variant
rs1000125499 -- 40,380,242(-) G/A genic_downstream_transcript_variant, intron_variant
rs1000125917 -- 40,412,211(-) C/T genic_downstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for LINC00598 Gene

Variant ID Type Subtype PubMed ID
dgv1633n100 CNV gain 25217958
esv3330505 CNV duplication 20981092
esv3631850 CNV loss 21293372
nsv1013 CNV insertion 18451855
nsv475723 CNV novel sequence insertion 20440878
nsv476336 CNV novel sequence insertion 20440878
nsv524578 CNV loss 19592680
nsv957486 CNV deletion 24416366

Additional Variant Information for LINC00598 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC00598

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for LINC00598 Gene

Disorders for LINC00598 Gene

MalaCards: The human disease database

(1) MalaCards diseases for LINC00598 Gene - From: LncRNADisease

Disorder Aliases PubMed IDs
breast cancer
  • breast cancer, familial
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for LINC00598

genes like me logo Genes that share disorders with LINC00598: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LINC00598 Gene

Publications for LINC00598 Gene

  1. Long noncoding RNA linc00598 regulates CCND2 transcription and modulates the G1 checkpoint. (PMID: 27572135) Jeong OS … Seo S (Scientific reports 2016) 2 3 58
  2. Identification of a novel fusion gene, TTL, fused to ETV6 in acute lymphoblastic leukemia with t(12;13)(p13;q14), and its implication in leukemogenesis. (PMID: 12764377) Qiao Y … Hirai H (Leukemia 2003) 2 3 58
  3. The long non-coding RNA lncFOXO1 suppresses growth of human breast cancer cells through association with BAP1. (PMID: 28339037) Xi J … Zeng S (International journal of oncology 2017) 3 58
  4. Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease. (PMID: 23128233) Jostins L … Cho JH (Nature 2012) 3 58
  5. Meta-analysis identifies 29 additional ulcerative colitis risk loci, increasing the number of confirmed associations to 47. (PMID: 21297633) Anderson CA … Rioux JD (Nature genetics 2011) 3 58

Products for LINC00598 Gene

Sources for LINC00598 Gene

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