Aliases for LINC00939 Gene

Data sources for LINC00939 Gene:

RNA type for LINC00939 Gene

lncRNA

Aliases for LINC00939 Gene

External Ids for LINC00939 Gene

Previous GeneCards Identifiers for LINC00939 Gene

  • GC12M126445

Summaries for LINC00939 Gene

GeneCards Summary for LINC00939 Gene

LINC00939 (Long Intergenic Non-Protein Coding RNA 939) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with LINC00939 include Li-Fraumeni Syndrome 2.

Additional gene information for LINC00939 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 LINC00939 Gene

Genomics for LINC00939 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LINC00939 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
GH12J125981 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE CraniofacialAtlas 261.5 +0.3 250 3.9 CEBPA YY1 SIN3A FOXA2 KDM6A SMAD4 RXRA SAP130 ZBTB33 RFX5 LINC00939 HSALNG0094921-001 LINC02826 TMEM132B
GH12J126051 Enhancer 0.8 Ensembl ENCODE 5.9 -68.3 -68275 1.5 JUND CEBPB CTCF MAX EP300 RAD21 SMC3 STAT3 TCF7L2 NFE2L2 LINC00939 LOC105370056 HSALNG0094924 HSALNG0094922 TMEM132B
GH12J126033 Enhancer 0.6 ENCODE 5.7 -51.6 -51583 4.5 FOXA2 RXRA RARA TEAD3 FOXP1 HNF4A NRF1 IKZF1 RAD21 NR2F1 LINC00939 LOC105370056 HSALNG0094922 LINC02826 HSALNG0094924 TMEM132B
GH12J126027 Enhancer 0.4 ENCODE 5.8 -44.3 -44284 1 CEBPB EP300 STAT3 TCF7L2 LINC00939 LOC105370056 lnc-DHX37-4 HSALNG0094922 LINC02826 TMEM132B
GH12J126050 Enhancer 0.2 ENCODE 5.9 -67.1 -67105 0.3 LINC00939 LOC105370056 HSALNG0094924 HSALNG0094922 TMEM132B
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC00939 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for LINC00939 Gene

Latest Assembly
chr12:125,958,550-125,983,690
(GRCh38/hg38)
Size:
25,141 bases
Orientation:
Minus strand

Previous Assembly
chr12:126,443,230-126,467,920
(GRCh37/hg19 by Entrez Gene)
Size:
24,691 bases
Orientation:
Minus strand

chr12:126,443,234-126,467,920
(GRCh37/hg19 by Ensembl)
Size:
24,687 bases
Orientation:
Minus strand

Genomic View for LINC00939 Gene

Genes around LINC00939 on UCSC Golden Path with GeneCards custom track
LINC00939 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Cytogenetic band:
LINC00939 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC00939 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC00939 Gene

Proteins for LINC00939 Gene

Post-translational modifications for LINC00939 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC00939 Gene

Domains & Families for LINC00939 Gene

Gene Families for LINC00939 Gene

genes like me logo Genes that share domains with LINC00939: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LINC00939 Gene

Function for LINC00939 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 LINC00939 Gene

Localization for LINC00939 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 LINC00939 Gene

Pathways & Interactions for LINC00939 Gene

PathCards logo

SuperPathways for LINC00939 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LINC00939 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for LINC00939 Gene

Drugs & Compounds for LINC00939 Gene

No Compound Related Data Available

Transcripts for LINC00939 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for LINC00939 Gene

RNAcentral Transcript ID RNA Type Length (nts) # of Sources Source Identifiers and Annotations
URS00001CE0EF_9606 lncRNA 4978 4

Ensembl: ENST00000502479 (view in UCSC) ,

LncBook: HSALNT0196723,

LNCipedia: LINC00939:8,

NONCODE: NONHSAT031731.2,

URS0000EF4414_9606 lncRNA 2877 1

Ensembl: ENST00000507313 (view in UCSC) ,

URS0000EECED7_9606 lncRNA 2082 1

Ensembl: ENST00000545784 (view in UCSC) ,

URS000075A2C3_9606 lncRNA 2078 1

RefSeq: NR_034132,

URS0000EF654B_9606 lncRNA 1316 1

Ensembl: ENST00000653452 (view in UCSC) ,

LINC00939 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for LINC00939 Gene

3 NCBI additional mRNA sequence :

Alternative Splicing Database (ASD) splice patterns (SP) for LINC00939 Gene

No ASD Table

Relevant External Links for LINC00939 Gene

GeneLoc Exon Structure for
LINC00939

Expression for LINC00939 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LINC00939 Gene

mRNA differential expression in normal tissues according to GTEx for LINC00939 Gene

This gene is overexpressed in Liver (x20.2), Testis (x10.1), and Minor Salivary Gland (x4.7).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LINC00939

genes like me logo Genes that share expression patterns with LINC00939: 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 LINC00939 Gene

Orthologs for LINC00939 Gene

Evolution for LINC00939 Gene

ENSEMBL:
Gene Tree for LINC00939 (if available)
TreeFam:
Gene Tree for LINC00939 (if available)
Alliance of Genome Resources:
Additional Orthologs for LINC00939

No data available for Orthologs for LINC00939 Gene

Paralogs for LINC00939 Gene

No data available for Paralogs for LINC00939 Gene

Variants for LINC00939 Gene

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for LINC00939 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 LINC00939 Gene

Variant ID Type Subtype PubMed ID
esv1007158 CNV loss 20482838

Additional Variant Information for LINC00939 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC00939
Leiden Open Variation Database (LOVD)
LINC00939

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 LINC00939 Gene

Disorders for LINC00939 Gene

MalaCards: The human disease database

(1) MalaCards diseases for LINC00939 Gene - From: COP

Disorder Aliases PubMed IDs
li-fraumeni syndrome 2
  • lfs2
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for LINC00939

genes like me logo Genes that share disorders with LINC00939: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LINC00939 Gene

Publications for LINC00939 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3
  2. 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

Products for LINC00939 Gene

Sources for LINC00939 Gene