Aliases for LINC00940 Gene

Subcategory (RNA class) for LINC00940 Gene

lncRNA

Number of RNA Genes sources:

2 / 14

Aliases for LINC00940 Gene

  • Long Intergenic Non-Protein Coding RNA 940 2 3 5
  • LINC00940 2 168
  • NONHSAG010180 92

External Ids for LINC00940 Gene

Additional External Ids for LINC00940 Gene

Previous GeneCards Identifiers for LINC00940 Gene

  • GC12M002040

Summaries for LINC00940 Gene

GeneCards Summary for LINC00940 Gene

LINC00940 (Long Intergenic Non-Protein Coding RNA 940) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with LINC00940 include Retinitis Pigmentosa 3 and Retinitis Pigmentosa 11.

Additional gene information for LINC00940 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 LINC00940 Gene

Genomics for LINC00940 Gene

GeneHancer (GH) Regulatory Elements for LINC00940 Gene

Promoters and enhancers for LINC00940 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
GH12J001935 Enhancer 1 Ensembl ENCODE dbSUPER 526.9 -0.4 -356 2.6 ZNF423 MXI1 OSR2 FOSL2 ZNF707 JUND PAX8 PKNOX1 NRF1 NFIB LINC00940 ENSG00000203593 piR-59297-100
GH12J002833 Promoter/Enhancer 1.4 EPDnew Ensembl ENCODE CraniofacialAtlas 5.6 -898.2 -898176 1.7 CTCF ZIC2 MXI1 POLR2G ZFHX2 KLF17 EGR1 GLIS1 RAD21 MAZ NRIP2 LINC00940 L13304-008 L13715-007 piR-32214-102 ITFG2
GH12J001628 Promoter/Enhancer 1.5 EPDnew Ensembl ENCODE dbSUPER 4.4 +306.5 306475 3.1 CTCF ZIC2 SAP30 EZH2 MXI1 WT1 MEF2B POLR2A TCF12 ZFHX2 WNT5B ENSG00000256706 CACNA2D4 ENSG00000250132 ERC1 RAD52 LINC00940 lnc-ADIPOR2-3 piR-32214-100
GH12J001933 Enhancer 1.1 ENCODE CraniofacialAtlas dbSUPER 0.7 +3.0 2987 0.7 USF1 SP1 ZNF341 OSR2 BCL11A TCF12 FOXA2 MEF2B ZFHX2 ZNF335 LINC00940 CACNA2D4
GH12J001939 Enhancer 1 Ensembl ENCODE dbSUPER 0.7 -3.3 -3297 1.7 CTCF REST RAD21 TRIM22 SMC3 YY1 ATF3 WRNIP1 IKZF3 RB1 piR-59297-100 piR-56883-042 ENSG00000256706 RAD52 ENSG00000203593 LINC00940
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC00940 on UCSC Golden Path with GeneCards custom track

Genomic Locations for LINC00940 Gene

Genomic Locations for LINC00940 Gene
chr12:1,929,202-1,936,576
(GRCh38/hg38)
Size:
7,375 bases
Orientation:
Minus strand
chr12:2,038,368-2,045,742
(GRCh37/hg19)
Size:
7,375 bases
Orientation:
Minus strand

Genomic View for LINC00940 Gene

Genes around LINC00940 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LINC00940 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC00940 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC00940 Gene

Proteins for LINC00940 Gene

Post-translational modifications for LINC00940 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC00940 Gene

Domains & Families for LINC00940 Gene

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LINC00940 Gene

Function for LINC00940 Gene

Phenotypes From GWAS Catalog for LINC00940 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 LINC00940 Gene

Localization for LINC00940 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 LINC00940 Gene

Pathways & Interactions for LINC00940 Gene

PathCards logo

SuperPathways for LINC00940 Gene

No Data Available
;

Gene Ontology (GO) - Biological Process for LINC00940 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for LINC00940 Gene

Drugs & Compounds for LINC00940 Gene

No Compound Related Data Available

Transcripts for LINC00940 Gene

mRNA/cDNA for LINC00940 Gene

4 RNACentral transcripts :
1 REFSEQ mRNAs :
4 NCBI additional mRNA sequence :
2 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
3 NONCODE transcripts :
4 LNCipedia transcripts :

Alternative Splicing Database (ASD) splice patterns (SP) for LINC00940 Gene

No ASD Table

Relevant External Links for LINC00940 Gene

GeneLoc Exon Structure for
LINC00940

Expression for LINC00940 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LINC00940 Gene

mRNA differential expression in normal tissues according to GTEx for LINC00940 Gene

This gene is overexpressed in Brain - Spinal cord (cervical c-1) (x8.4), Brain - Substantia nigra (x5.4), Adrenal Gland (x5.4), and Testis (x4.4).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LINC00940

genes like me logo Genes that share expression patterns with LINC00940: 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 LINC00940 Gene

Orthologs for LINC00940 Gene

Evolution for LINC00940 Gene

ENSEMBL:
Gene Tree for LINC00940 (if available)
TreeFam:
Gene Tree for LINC00940 (if available)

No data available for Orthologs for LINC00940 Gene

Paralogs for LINC00940 Gene

No data available for Paralogs for LINC00940 Gene

Variants for LINC00940 Gene

Additional dbSNP identifiers (rs#s) for LINC00940 Gene

Structural Variations from Database of Genomic Variants (DGV) for LINC00940 Gene

Variant ID Type Subtype PubMed ID
nsv1040370 CNV gain 25217958
nsv1129530 CNV tandem duplication 24896259
nsv557000 CNV loss 21841781

Additional Variant Information for LINC00940 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC00940

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 LINC00940 Gene

Disorders for LINC00940 Gene

MalaCards: The human disease database

(3) MalaCards diseases for LINC00940 Gene - From: DISEASES

Disorder Aliases PubMed IDs
retinitis pigmentosa 3
  • rp3
retinitis pigmentosa 11
  • rp11
retinitis pigmentosa
  • retinitis pigmentosa 1
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for LINC00940

genes like me logo Genes that share disorders with LINC00940: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LINC00940 Gene

Publications for LINC00940 Gene

  1. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K … Sugano S (Genome research 2006) 3 54

Products for LINC00940 Gene

Sources for LINC00940 Gene