Aliases for LINC01488 Gene

Data sources for LINC01488 Gene:

RNA type for LINC01488 Gene

lncRNA

Aliases for LINC01488 Gene

External Ids for LINC01488 Gene

Summaries for LINC01488 Gene

GeneCards Summary for LINC01488 Gene

LINC01488 (Long Intergenic Non-Protein Coding RNA 1488) is an RNA Gene, and is affiliated with the lncRNA class.

Additional gene information for LINC01488 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 LINC01488 Gene

Genomics for LINC01488 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LINC01488 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
GH11J069478 Promoter/Enhancer 1.5 EPDnew Ensembl ENCODE dbSUPER 250.7 -1.5 -1528 3.3 MCM7 ZBTB7B ZNF217 HES1 MBD2 CTBP1 RXRA ZNF511 SAP130 NONO LINC01488 HSALNG0085349 LINC02747 LOC102724265 CCND1
GH11J069493 Enhancer 1.5 VISTA Ensembl ENCODE CraniofacialAtlas 0.4 +15.6 15647 7.8 JUND ZNF223 ZBTB10 ZEB1 ZNF217 MBD2 FOXA2 CTBP1 SMAD4 SAP130 KC136297 LINC01488 HSALNG0085355 LOC102724265 CCND1
GH11J069483 Enhancer 1 Ensembl ENCODE CraniofacialAtlas 0.4 +5.0 5040 6.6 YY1 SMAD4 RXRA RARA TEAD3 PRDM10 SOX5 PKNOX1 HNF4A REST KC136297 lnc-MYEOV-8 LINC01488 HSALNG0085355 LOC102724265 CCND1
GH11J069474 Enhancer 0.9 Ensembl ENCODE CraniofacialAtlas dbSUPER 0.4 -5.5 -5473 4 RFX1 POU5F1 ATF1 HSALNG0085349 LINC01488 LINC02747 LOC102724265 CCND1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC01488 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for LINC01488 Gene

Latest Assembly
chr11:69,481,661-69,495,747
(GRCh38/hg38)
Size:
14,087 bases
Orientation:
Plus strand

Previous Assembly
chr11:69,300,329-69,308,311
(GRCh37/hg19 by Entrez Gene)
Size:
7,983 bases
Orientation:
Plus strand

Genomic View for LINC01488 Gene

Genes around LINC01488 on UCSC Golden Path with GeneCards custom track
LINC01488 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Cytogenetic band:
LINC01488 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC01488 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC01488 Gene

Proteins for LINC01488 Gene

Post-translational modifications for LINC01488 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC01488 Gene

Domains & Families for LINC01488 Gene

Gene Families for LINC01488 Gene

genes like me logo Genes that share domains with LINC01488: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LINC01488 Gene

Function for LINC01488 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 LINC01488 Gene

Localization for LINC01488 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 LINC01488 gene
Compartment Confidence
cytoskeleton 1

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 LINC01488 Gene

Pathways & Interactions for LINC01488 Gene

PathCards logo

SuperPathways for LINC01488 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LINC01488 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for LINC01488 Gene

Drugs & Compounds for LINC01488 Gene

No Compound Related Data Available

Transcripts for LINC01488 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for LINC01488 Gene

RNAcentral Transcript ID RNA Type Length (nts) # of Sources Source Identifiers and Annotations
URS0000759D46_9606 lncRNA 3425 3

RefSeq: NR_120542,

LNCipedia: LINC01488:1,

NONCODE: NONHSAT159342.1,

URS000075DFDA_9606 lncRNA 3326 3

RefSeq: NR_120544,

LNCipedia: LINC01488:3,

NONCODE: NONHSAT159343.1,

URS000075DD71_9606 lncRNA 2911 3

RefSeq: NR_120545,

LNCipedia: LINC01488:2,

NONCODE: NONHSAT159344.1,

URS0000D65646_9606 lncRNA 4635 2

Ensembl: ENST00000642898 (view in UCSC) ,

LNCipedia: LINC01488:9,

URS000075DC73_9606 lncRNA 3287 2

RefSeq: NR_120543,

LNCipedia: LINC01488:4,

LINC01488 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for LINC01488 Gene

13 NCBI additional mRNA sequence :

Alternative Splicing Database (ASD) splice patterns (SP) for LINC01488 Gene

No ASD Table

Relevant External Links for LINC01488 Gene

GeneLoc Exon Structure for
LINC01488

Expression for LINC01488 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LINC01488

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 LINC01488 Gene

Orthologs for LINC01488 Gene

Evolution for LINC01488 Gene

ENSEMBL:
Gene Tree for LINC01488 (if available)
TreeFam:
Gene Tree for LINC01488 (if available)
Alliance of Genome Resources:
Additional Orthologs for LINC01488

No data available for Orthologs for LINC01488 Gene

Paralogs for LINC01488 Gene

No data available for Paralogs for LINC01488 Gene

Variants for LINC01488 Gene

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for LINC01488 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for LINC01488 Gene

Variant ID Type Subtype PubMed ID
dgv1990n54 CNV loss 21841781
nsv468622 CNV loss 19166990
nsv469968 CNV loss 18288195
nsv508639 CNV deletion 20534489

Additional Variant Information for LINC01488 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC01488
Leiden Open Variation Database (LOVD)
LINC01488

SNP Genotyping and Copy Number Assays for research

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 LINC01488 Gene

Disorders for LINC01488 Gene

Additional Disease Information for LINC01488

No disorders were found for LINC01488 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LINC01488 Gene

Publications for LINC01488 Gene

  1. A genome-wide association study of early-onset breast cancer identifies PFKM as a novel breast cancer gene and supports a common genetic spectrum for breast cancer at any age. (PMID: 24493630) Ahsan H … Whittemore AS (Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology 2014) 3

Products for LINC01488 Gene

Sources for LINC01488 Gene