Aliases for LINC00486 Gene

Subcategory (RNA class) for LINC00486 Gene

lncRNA

Number of RNA Genes sources:

3 / 14

Aliases for LINC00486 Gene

  • Long Intergenic Non-Protein Coding RNA 486 2 3 5
  • LINC00486 2 168
  • HSALNG0014102 167
  • NONHSAG027432 92

External Ids for LINC00486 Gene

Previous GeneCards Identifiers for LINC00486 Gene

  • GC02P033051
  • GC02P033053

Summaries for LINC00486 Gene

GeneCards Summary for LINC00486 Gene

LINC00486 (Long Intergenic Non-Protein Coding RNA 486) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with LINC00486 include Interstitial Nephritis, Karyomegalic.

Rfam classification for LINC00486 Gene

Additional gene information for LINC00486 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary and piRNA Summary for LINC00486 Gene

Genomics for LINC00486 Gene

GeneHancer (GH) Regulatory Elements for LINC00486 Gene

Promoters and enhancers for LINC00486 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
GH02J032825 Enhancer 0.9 Ensembl ENCODE 500.7 +0.3 300 2.3 ZSCAN5C ZNF510 TRIM28 ZNF491 ZNF132 NFIC ZNF195 GATA3 ZNF184 SPI1 LINC00486 YIPF4 BIRC6 piR-48369-082
GH02J033013 Enhancer 1.1 Ensembl ENCODE CraniofacialAtlas 5.3 +189.7 189674 3.6 ZSCAN5C USF1 ZNF639 ZIC2 TRIM28 ZEB1 ATF2 NR2F2 TCF7L2 ZNF707 ENSG00000206951 LTBP1 LINC00486 piR-42491-127 piR-33770-001
GH02J032926 Enhancer 0.7 Ensembl ENCODE 7.7 +101.5 101474 2 TEAD4 ATF2 CREB1 TCF12 SIN3A JUN SP1 CTCF RBBP5 SCRT2 ENSG00000236854 LTBP1 LINC00486 LOC105374453
GH02J032933 Enhancer 0.9 Ensembl ENCODE 5.2 +107.6 107610 2 ZBTB40 RELA CREB1 CREB3L1 BMI1 GTF2A2 NFE2 FOSL1 GATA3 STAT5A ENSG00000236854 LINC00486 ENSG00000206951
GH02J032937 Enhancer 1 Ensembl ENCODE CraniofacialAtlas 4.7 +113.2 113175 1.8 ZNF217 CTBP1 SIN3A ZNF316 MAFF ZKSCAN1 MAFK TCF12 SIX4 GATA3 ENSG00000236854 LINC00486 ENSG00000206951
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC00486 on UCSC Golden Path with GeneCards custom track

Genomic Locations for LINC00486 Gene

Genomic Locations for LINC00486 Gene
chr2:32,825,327-32,946,136
(GRCh38/hg38)
Size:
120,810 bases
Orientation:
Plus strand
chr2:33,050,510-33,162,270
(GRCh37/hg19)
Size:
111,761 bases
Orientation:
Plus strand

Genomic View for LINC00486 Gene

Genes around LINC00486 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LINC00486 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC00486 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC00486 Gene

Proteins for LINC00486 Gene

Post-translational modifications for LINC00486 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC00486 Gene

Domains & Families for LINC00486 Gene

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LINC00486 Gene

Function for LINC00486 Gene

Phenotypes From GWAS Catalog for LINC00486 Gene

Animal Model Products

CRISPR Products

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 LINC00486 Gene

Localization for LINC00486 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 LINC00486 Gene

Pathways & Interactions for LINC00486 Gene

PathCards logo

SuperPathways for LINC00486 Gene

No Data Available
;

Gene Ontology (GO) - Biological Process for LINC00486 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for LINC00486 Gene

Drugs & Compounds for LINC00486 Gene

No Compound Related Data Available

Transcripts for LINC00486 Gene

mRNA/cDNA for LINC00486 Gene

35 RNACentral transcripts :
3 REFSEQ mRNAs :
7 NCBI additional mRNA sequence :
8 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
15 NONCODE transcripts :
17 LncBook transcripts :
26 LNCipedia transcripts :

CRISPR Products

Alternative Splicing Database (ASD) splice patterns (SP) for LINC00486 Gene

No ASD Table

Relevant External Links for LINC00486 Gene

GeneLoc Exon Structure for
LINC00486

Expression for LINC00486 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LINC00486 Gene

mRNA differential expression in normal tissues according to GTEx for LINC00486 Gene

This gene is overexpressed in Brain - Putamen (basal ganglia) (x7.2), Brain - Amygdala (x6.7), Brain - Substantia nigra (x4.5), Brain - Hippocampus (x4.4), and Brain - Caudate (basal ganglia) (x4.3).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LINC00486

SOURCE GeneReport for Unigene cluster for LINC00486 Gene:

Hs.434660
genes like me logo Genes that share expression patterns with LINC00486: 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 LINC00486 Gene

Orthologs for LINC00486 Gene

Evolution for LINC00486 Gene

ENSEMBL:
Gene Tree for LINC00486 (if available)
TreeFam:
Gene Tree for LINC00486 (if available)

No data available for Orthologs for LINC00486 Gene

Paralogs for LINC00486 Gene

No data available for Paralogs for LINC00486 Gene

Variants for LINC00486 Gene

Additional dbSNP identifiers (rs#s) for LINC00486 Gene

Structural Variations from Database of Genomic Variants (DGV) for LINC00486 Gene

Variant ID Type Subtype PubMed ID
dgv1109e212 CNV gain 25503493
dgv1881n106 CNV deletion 24896259
dgv1882n106 CNV deletion 24896259
dgv1883n106 CNV deletion 24896259
dgv3749n100 CNV gain 25217958
dgv443n27 CNV gain 19166990
dgv60n16 CNV deletion 17901297
dgv6750n54 CNV gain 21841781
esv1004193 CNV deletion 20482838
esv2422335 CNV duplication 17116639
esv2422472 CNV duplication 17116639
esv2438612 CNV deletion 19546169
esv2518901 CNV loss 19546169
esv2562805 CNV deletion 19546169
esv2670363 CNV deletion 23128226
esv2675969 CNV deletion 23128226
esv2719882 CNV deletion 23290073
esv2751888 CNV gain 17911159
esv2763243 CNV gain 21179565
esv3554589 CNV deletion 23714750
esv3554611 CNV deletion 23714750
esv3590249 CNV gain 21293372
esv3590263 CNV loss 21293372
esv3590264 CNV gain 21293372
esv3590265 CNV loss 21293372
esv8758 CNV loss 19470904
esv993874 CNV deletion 20482838
nsv1005939 CNV gain 25217958
nsv1072403 CNV deletion 25765185
nsv1072404 CNV deletion 25765185
nsv1138764 CNV deletion 24896259
nsv1147375 CNV deletion 26484159
nsv2668 CNV deletion 18451855
nsv2669 CNV deletion 18451855
nsv478354 CNV novel sequence insertion 20440878
nsv508719 CNV deletion 20534489
nsv511773 CNV loss 21212237
nsv511774 CNV loss 21212237
nsv516173 CNV gain+loss 19592680
nsv581284 CNV gain 21841781
nsv581285 CNV gain 21841781
nsv581287 CNV gain 21841781
nsv953766 CNV deletion 24416366
nsv955015 CNV deletion 24416366

Additional Variant Information for LINC00486 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC00486

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 LINC00486 Gene

Disorders for LINC00486 Gene

MalaCards: The human disease database

(1) MalaCards diseases for LINC00486 Gene - From: DISEASES

Disorder Aliases PubMed IDs
interstitial nephritis, karyomegalic
  • kmin
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for LINC00486

genes like me logo Genes that share disorders with LINC00486: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LINC00486 Gene

Publications for LINC00486 Gene

  1. Integrated genome-wide association, coexpression network, and expression single nucleotide polymorphism analysis identifies novel pathway in allergic rhinitis. (PMID: 25085501) Bunyavanich S … Weiss ST (BMC medical genomics 2014) 3 54
  2. Genome-wide analysis of polymorphisms associated with cytokine responses in smallpox vaccine recipients. (PMID: 22610502) Kennedy RB … Poland GA (Human genetics 2012) 3 54
  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 54
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 54
  5. 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 54

Products for LINC00486 Gene

Sources for LINC00486 Gene