Aliases for LINC00598 Gene

Subcategory (RNA class) for LINC00598 Gene

lncRNA

Number of RNA Genes sources:

3 / 17

Aliases for LINC00598 Gene

  • Long Intergenic Non-Protein Coding RNA 598 2 3 5
  • Twelve-Thirteen Translocation Leukemia Transcript (Non-Protein Coding) 2 3
  • LINC00598 2 5
  • LncFOXO1 2 3
  • NONHSAG013297.2 91
  • HSALNG0096529 164
  • HSALNG0096546 164
  • Lnc-FOXO1-2 165
  • LINC00548 2
  • TTL 2

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 lncRNA 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 Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LINC00598 Gene

Genomics for LINC00598 Gene

GeneHancer (GH) Regulatory Elements Pubs

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
GH13J040401 Promoter/Enhancer 1.5 EPDnew Ensembl ENCODE 600.1 +133.1 133063 2.7 JUND PRDM1 IKZF2 SP1 HDAC1 CEBPA SOX13 CEBPB RUNX3 GATAD2B LINC00598 FOXO1 RN7SKP2 lnc-FOXO1-3 RF00017-1396 LINC00548 COG6
GH13J040438 Promoter/Enhancer 1.3 EPDnew Ensembl ENCODE 600.2 +95.9 95926 3.6 REST SP1 FOXA2 YY1 ZBTB33 JUND NR2F2 GATA3 TCF7L2 RAD21 LINC00598 FOXO1 SUGT1P3 RF00017-1397 piR-40110-155 LINC00548 COG6
GH13J040535 Enhancer 1 Ensembl ENCODE 600.7 -1.0 -992 2.2 HNRNPL GATAD2A TFE3 SOX13 RCOR2 RXRB SP1 ZNF600 CEBPA FOXK2 LINC00548 LINC00598 ENSG00000288542 MTRF1 lnc-SLC25A15-9 FOXO1 COG6
GH13J040479 Promoter/Enhancer 0.9 EPDnew ENCODE 600.2 +55.4 55376 1.3 HNRNPL GATAD2A RCOR2 RXRB IRF2 TFDP1 SAP130 ZMYM3 BCL6 TFAP4 lnc-SLC25A15-11 lnc-SLC25A15-12 LINC00598 FOXO1 LINC00548 ENSG00000288542 COG6
GH13J040375 Promoter/Enhancer 0.9 EPDnew Ensembl 600.1 +158.8 158807 2.4 MNT RFX1 POLR2A RCOR1 FOS MYC MAX GATA2 LINC00598 RF00017-1396 lnc-FOXO1-3 RN7SKP2 LINC00548 FOXO1 COG6
- 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 the GeneHancer Hub at the UCSC Golden Path

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
LINC00598 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

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

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

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure 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

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

PathCards logo

SuperPathways for LINC00598 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LINC00598 Gene

None

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

Drugs & Compounds for LINC00598 Gene

No Compound Related Data Available

Transcripts for LINC00598 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for LINC00598 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS000075AA30_9606 lncRNA 2551 5

HGNC: 43683,

RefSeq: NR_033877,

Ensembl: ENST00000617777 (view in UCSC) ,

LNCipedia: lnc-FOXO1-2:3,

NONCODE: NONHSAT033321.2,

URS0000220509_9606 lncRNA 702 4

Ensembl: ENST00000400430 (view in UCSC) ,

LncBook: HSALNT0200444,

LNCipedia: lnc-FOXO1-2:10,

NONCODE: NONHSAT033334.2,

URS000077B2F6_9606 lncRNA 483 4

Ensembl: ENST00000615137 (view in UCSC) ,

LncBook: HSALNT0200445,

LNCipedia: lnc-FOXO1-2:9,

NONCODE: NONHSAT166651.1,

URS0000775C71_9606 lncRNA 3541 3

Ensembl: ENST00000615947 (view in UCSC) ,

LncBook: HSALNT0200394,

LNCipedia: lnc-FOXO1-2:32,

URS000076BA1F_9606 lncRNA 2088 3

Ensembl: ENST00000616706 (view in UCSC) ,

LNCipedia: lnc-FOXO1-2:4,

NONCODE: NONHSAT033333.2,

LINC00598 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for LINC00598 Gene

1 NCBI additional mRNA sequence :

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

No ASD Table

Relevant External Links for LINC00598 Gene

GeneLoc Exon Structure for
LINC00598

Expression for LINC00598 Gene

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

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

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

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

Additional dbSNP identifiers (rs#s) for LINC00598 Gene

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 , Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP and Variation tolerance for LINC00598 Gene

Disorders for LINC00598 Gene

MalaCards: The human disease database

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

Disorder Aliases PubMed IDs
breast cancer
  • breast lobular carcinoma
- 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. 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) 2 3
  2. Long noncoding RNA linc00598 regulates CCND2 transcription and modulates the G1 checkpoint. (PMID: 27572135) Jeong OS … Seo S (Scientific reports 2016) 2 3
  3. Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease. (PMID: 23128233) Jostins L … Cho JH (Nature 2012) 3
  4. 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
  5. A genome-wide meta-analysis identifies novel loci associated with schizophrenia and bipolar disorder. (PMID: 20889312) Wang KS … Aragam N (Schizophrenia research 2010) 3

Products for LINC00598 Gene

Sources for LINC00598 Gene