Aliases for LINC00494 Gene

Data sources for LINC00494 Gene:

Subcategory (RNA class) for LINC00494 Gene

lncRNA

Aliases for LINC00494 Gene

External Ids for LINC00494 Gene

Previous GeneCards Identifiers for LINC00494 Gene

  • GC20P046985

Summaries for LINC00494 Gene

GeneCards Summary for LINC00494 Gene

LINC00494 (Long Intergenic Non-Protein Coding RNA 494) is an RNA Gene, and is affiliated with the lncRNA class.

Additional gene information for LINC00494 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 LINC00494 Gene

Genomics for LINC00494 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LINC00494 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
GH20J048359 Promoter/Enhancer 1.5 EPDnew Ensembl ENCODE 264.5 +5.0 5001 1.8 BCL11A ZNF217 POLR2A ZBTB7B ZIC2 RAD51 TRIM22 EBF1 GABPB1 HES1 LINC00494 lnc-PREX1-6 SULF2 ENSG00000286063 PREX1
GH20J048356 Enhancer 0.8 ENCODE 250.7 +1.5 1480 0.2 CEBPA HOMEZ KDM6A THAP11 SMAD4 SAP130 MIER3 ZSCAN9 GABPB1 RARA LINC00494 lnc-PREX1-6 ENSG00000286063 PREX1 SULF2
GH20J048372 Enhancer 1.3 ENCODE CraniofacialAtlas dbSUPER 15.4 +18.9 18945 3.4 MXD4 CEBPA CTCF ZBTB7B ELF1 ZIC2 HOMEZ KDM6A THAP11 CEBPB HSALNG0130612 HSALNG0130613 LINC00494 SULF2 ENSG00000286063 PREX1
GH20J048338 Enhancer 1 Ensembl ENCODE 15.1 -15.8 -15818 2 SP1 BCL11A MBD2 IRF4 TRIM22 EBF1 HES1 CTBP1 RARA SIN3A piR-38051-173 LINC00494 lnc-ARFGEF2-4 ENSG00000286063 PREX1 SULF2
GH20J048367 Enhancer 1 Ensembl ENCODE CraniofacialAtlas dbSUPER 14.5 +13.3 13287 2.6 CTCF RCOR1 GATA2 ZNF687 SPI1 ENSG00000286063 LINC00494 HSALNG0130613 PREX1 SULF2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC00494 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for LINC00494 Gene

Latest Assembly
chr20:48,355,213-48,371,682
(GRCh38/hg38)
Size:
16,470 bases
Orientation:
Plus strand

Previous Assembly
chr20:46,988,654-46,999,381
(GRCh37/hg19 by Entrez Gene)
Size:
10,728 bases
Orientation:
Plus strand

chr20:46,988,693-46,999,372
(GRCh37/hg19 by Ensembl)
Size:
10,680 bases
Orientation:
Plus strand

Genomic View for LINC00494 Gene

Genes around LINC00494 on UCSC Golden Path with GeneCards custom track
LINC00494 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Cytogenetic band:
LINC00494 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC00494 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC00494 Gene

Proteins for LINC00494 Gene

Post-translational modifications for LINC00494 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC00494 Gene

Domains & Families for LINC00494 Gene

Gene Families for LINC00494 Gene

Suggested Antigen Peptide Sequences for LINC00494 Gene

GenScript: Design optimal peptide antigens:
  • Hypothetical LOC284749 (A4QN14_HUMAN)
genes like me logo Genes that share domains with LINC00494: view

No data available for Protein Domains , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LINC00494 Gene

Function for LINC00494 Gene

Phenotypes From GWAS Catalog for LINC00494 Gene

CRISPR products for research

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 LINC00494 Gene

Localization for LINC00494 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 LINC00494 Gene

Pathways & Interactions for LINC00494 Gene

PathCards logo

SuperPathways for LINC00494 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LINC00494 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for LINC00494 Gene

Drugs & Compounds for LINC00494 Gene

No Compound Related Data Available

Transcripts for LINC00494 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for LINC00494 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS00002DC68C_9606 lncRNA 3544 2

Ensembl: ENST00000416742 (view in UCSC) ,

LNCipedia: LINC00494:4,

URS0000A9CCEC_9606 lncRNA 3347 2

Ensembl: ENST00000545181 (view in UCSC) ,

LNCipedia: LINC00494:6,

URS000019FC1B_9606 lncRNA 3074 2

Ensembl: ENST00000433094 (view in UCSC) ,

LNCipedia: LINC00494:8,

URS000075AAA5_9606 lncRNA 3592 1

RefSeq: NR_026958,

URS0000EEFAF1_9606 lncRNA 3418 1

Ensembl: ENST00000655482 (view in UCSC) ,

LINC00494 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for LINC00494 Gene

5 NCBI additional mRNA sequence :

Alternative Splicing Database (ASD) splice patterns (SP) for LINC00494 Gene

No ASD Table

Relevant External Links for LINC00494 Gene

GeneLoc Exon Structure for
LINC00494

Expression for LINC00494 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LINC00494 Gene

mRNA differential expression in normal tissues according to GTEx for LINC00494 Gene

This gene is overexpressed in Testis (x12.9), Spleen (x10.7), Small Intestine - Terminal Ileum (x6.5), and Pituitary (x5.5).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LINC00494

SOURCE GeneReport for Unigene cluster for LINC00494 Gene:

Hs.299080
genes like me logo Genes that share expression patterns with LINC00494: 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 LINC00494 Gene

Orthologs for LINC00494 Gene

Evolution for LINC00494 Gene

ENSEMBL:
Gene Tree for LINC00494 (if available)
TreeFam:
Gene Tree for LINC00494 (if available)

No data available for Orthologs for LINC00494 Gene

Paralogs for LINC00494 Gene

No data available for Paralogs for LINC00494 Gene

Variants for LINC00494 Gene

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for LINC00494 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 LINC00494 Gene

Variant ID Type Subtype PubMed ID
dgv2259n106 OTHER inversion 24896259
dgv4322n100 CNV loss 25217958
dgv792e199 CNV deletion 23128226
esv2722468 CNV deletion 23290073
esv2722476 CNV deletion 23290073
esv2763661 CNV gain 21179565
esv3589 OTHER complex 18987735
esv3645989 CNV gain 21293372
esv3645990 CNV gain 21293372
esv3893343 CNV gain 25118596
nsv1149619 OTHER inversion 26484159
nsv458999 CNV gain 19166990
nsv470553 CNV gain 18288195
nsv524004 CNV gain 19592680
nsv586157 CNV gain 21841781
nsv586165 CNV gain 21841781
nsv586167 CNV gain 21841781
nsv833997 CNV gain 17160897

Additional Variant Information for LINC00494 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC00494

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 LINC00494 Gene

Disorders for LINC00494 Gene

Additional Disease Information for LINC00494

No disorders were found for LINC00494 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LINC00494 Gene

Publications for LINC00494 Gene

  1. 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) 2 3
  2. p53-inducible long non-coding RNA PICART1 mediates cancer cell proliferation and migration. (PMID: 28339031) Cao Y … Cao D (International journal of oncology 2017) 3
  3. 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

Products for LINC00494 Gene

Sources for LINC00494 Gene