Aliases for LINC02538 Gene

Subcategory (RNA class) for LINC02538 Gene

lncRNA

Quality Score for this RNA gene is

14

Aliases for LINC02538 Gene

  • Long Intergenic Non-Protein Coding RNA 2538 2 3 5
  • LINC02538 2 170
  • NONHSAG045424 94

External Ids for LINC02538 Gene

Summaries for LINC02538 Gene

GeneCards Summary for LINC02538 Gene

LINC02538 (Long Intergenic Non-Protein Coding RNA 2538) is an RNA Gene, and is affiliated with the lncRNA class.

Additional gene information for LINC02538 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 LINC02538 Gene

Genomics for LINC02538 Gene

GeneHancer (GH) Regulatory Elements for LINC02538 Gene

Promoters and enhancers for LINC02538 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
GH06J167675 Promoter/Enhancer 1.7 FANTOM5 Ensembl ENCODE CraniofacialAtlas 750.6 +1.9 1940 4.4 FOXA1 MLX RBPJ NR2F1 NR2F6 ATF1 MIXL1 NFYC RAD21 POU5F1 ENSG00000287594 LINC02538 lnc-AFDN-10 LINC01558 UNC93A
GH06J167679 Promoter/Enhancer 0.6 Ensembl CraniofacialAtlas 750.6 -0.6 -590 0.5 CEBPG ENSG00000287594 LINC02538 lnc-AFDN-9 LINC02487
GH06J167680 Enhancer 1.3 Ensembl ENCODE CraniofacialAtlas 0.6 -4.1 -4131 5.2 LCORL FOXA1 MLX RBPJ NR2F1 ATF1 NR2F6 CREB1 MIXL1 NFYC lnc-AFDN-9 LINC01558 SMOC2 LINC02538 LINC02487
GH06J167667 Enhancer 1.3 Ensembl ENCODE CraniofacialAtlas 0.4 +10.0 10046 3.8 LCORL FOXA1 MLX RBPJ NR2F1 NR2F6 MIXL1 NFYC HLF RAD21 lnc-AFDN-10 ENSG00000287297 LINC02538
GH06J167671 Enhancer 0.5 Ensembl 0.4 +7.8 7769 0.2 IKZF1 CTCF MNT ZNF207 NONO SP1 IKZF5 FEZF1 NBN lnc-AFDN-10 LINC02538 ENSG00000287297
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC02538 on UCSC Golden Path with GeneCards custom track

Genomic Locations for LINC02538 Gene

Genomic Locations for LINC02538 Gene
chr6:167,666,840-167,679,270
(GRCh38/hg38)
Size:
12,431 bases
Orientation:
Minus strand
chr6:168,067,520-168,079,950
(GRCh37/hg19)
Size:
12,431 bases
Orientation:
Minus strand

Genomic View for LINC02538 Gene

Genes around LINC02538 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LINC02538 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC02538 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC02538 Gene

Function for LINC02538 Gene

Phenotypes From GWAS Catalog for LINC02538 Gene

Phenotypes for LINC02538 Gene

genes like me logo Genes that share phenotypes with LINC02538: view

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for LINC02538 Gene

Localization for LINC02538 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 LINC02538 Gene

Pathways & Interactions for LINC02538 Gene

PathCards logo

SuperPathways for LINC02538 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LINC02538 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LINC02538 Gene

Drugs & Compounds for LINC02538 Gene

No Compound Related Data Available

Transcripts for LINC02538 Gene

mRNA/cDNA for LINC02538 Gene

(1) REFSEQ mRNAs :
(2) Additional mRNA sequences :
(4) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
(4) RNACentral transcripts :
(4) LNCipedia transcripts :
(1) NONCODE transcripts :

Alternative Splicing Database (ASD) splice patterns (SP) for LINC02538 Gene

No ASD Table

Relevant External Links for LINC02538 Gene

GeneLoc Exon Structure for
LINC02538
ECgene alternative splicing isoforms for
LINC02538

Expression for LINC02538 Gene

No Expression Related Data Available

Primer Products

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 LINC02538 Gene

Orthologs for LINC02538 Gene

Evolution for LINC02538 Gene

ENSEMBL:
Gene Tree for LINC02538 (if available)
TreeFam:
Gene Tree for LINC02538 (if available)

No data available for Orthologs for LINC02538 Gene

Paralogs for LINC02538 Gene

No data available for Paralogs for LINC02538 Gene

Variants for LINC02538 Gene

Sequence variations from dbSNP and Humsavar for LINC02538 Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs1000014044 -- 167,676,839(-) G/A intron_variant
rs1000277091 -- 167,670,196(-) C/G non_coding_transcript_variant
rs1000440446 -- 167,681,109(-) C/G upstream_transcript_variant
rs1000476931 -- 167,675,202(-) A/C/G intron_variant
rs1000611373 -- 167,671,425(-) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for LINC02538 Gene

Variant ID Type Subtype PubMed ID
esv2422263 CNV duplication 17116639
esv2759492 CNV gain 17122850
esv3576253 CNV gain 25503493
esv3611673 CNV loss 21293372
nsv1019214 CNV gain 25217958
nsv1027114 CNV gain 25217958
nsv348674 CNV insertion 16902084
nsv509171 CNV insertion 20534489

Additional Variant Information for LINC02538 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC02538

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for LINC02538 Gene

Disorders for LINC02538 Gene

Additional Disease Information for LINC02538

No disorders were found for LINC02538 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LINC02538 Gene

Publications for LINC02538 Gene

No publications were found for LINC02538 Gene.

No data available for External Links for LINC02538 Gene

Products for LINC02538 Gene

Sources for LINC02538 Gene