Aliases for LINC00838 Gene

Subcategory (RNA class) for LINC00838 Gene

lncRNA

Quality Score for this RNA gene is

15

Aliases for LINC00838 Gene

  • Long Intergenic Non-Protein Coding RNA 838 2 3 5
  • LINC00838 2 170
  • NONHSAG005594 94
  • HSALNG0077218 169

External Ids for LINC00838 Gene

Previous GeneCards Identifiers for LINC00838 Gene

  • GC10M034049

Summaries for LINC00838 Gene

GeneCards Summary for LINC00838 Gene

LINC00838 (Long Intergenic Non-Protein Coding RNA 838) is an RNA Gene, and is affiliated with the lncRNA class.

Additional gene information for LINC00838 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 LINC00838 Gene

Genomics for LINC00838 Gene

GeneHancer (GH) Regulatory Elements for LINC00838 Gene

Promoters and enhancers for LINC00838 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
GH10J033772 Promoter/Enhancer 1.3 FANTOM5 Ensembl ENCODE CraniofacialAtlas 750.6 -0.5 -509 2.3 L3MBTL2 SP1 MLLT1 ZNF687 IKZF1 EZH2 BMI1 NR2F1 NR2F2 ZFP91 LINC00838 piR-30306-002 piR-61493
GH10J033326 Enhancer 0.9 dbSUPER 14.6 +445.9 445892 1.1 ZBTB6 NR2F6 CREB1 MIXL1 ZNF121 BCL6B CEBPG SP7 PKNOX1 ZIC2 LINC02628 LINC00838 CCDC7 NRP1 RF00017-649
GH10J033742 Enhancer 0.5 ENCODE 0.3 +29.4 29445 1.2 ZNF687 IKZF1 IKZF2 ELF1 NR2F1 NBN NFIA ZNF217 lnc-CCDC7-19 LINC00838
GH10J033760 Enhancer 0.3 Ensembl 0.4 +12.2 12214 0.6 POLR2A MAFK LINC00838 lnc-CCDC7-19
GH10J033735 Enhancer 0.5 Ensembl 0.3 +37.5 37514 0.4 IKZF2 SCRT2 SCRT1 IKZF1 NR2F1 FOS lnc-CCDC7-19 LINC00838
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC00838 on UCSC Golden Path with GeneCards custom track

Genomic Locations for LINC00838 Gene

Genomic Locations for LINC00838 Gene
chr10:33,759,713-33,772,715
(GRCh38/hg38)
Size:
13,003 bases
Orientation:
Minus strand
chr10:34,048,641-34,061,608
(GRCh37/hg19)
Size:
12,968 bases
Orientation:
Minus strand

Genomic View for LINC00838 Gene

Genes around LINC00838 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LINC00838 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC00838 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC00838 Gene

Proteins for LINC00838 Gene

Post-translational modifications for LINC00838 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC00838 Gene

Domains & Families for LINC00838 Gene

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LINC00838 Gene

Function for LINC00838 Gene

Phenotypes From GWAS Catalog for LINC00838 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 LINC00838 Gene

Localization for LINC00838 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 LINC00838 Gene

Pathways & Interactions for LINC00838 Gene

PathCards logo

SuperPathways for LINC00838 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LINC00838 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LINC00838 Gene

Drugs & Compounds for LINC00838 Gene

No Compound Related Data Available

Transcripts for LINC00838 Gene

mRNA/cDNA for LINC00838 Gene

(1) REFSEQ mRNAs :
(2) Additional mRNA sequences :
(5) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
(9) RNACentral transcripts :
(6) LncBook transcripts :
(5) NONCODE transcripts :
(7) LNCipedia transcripts :

Alternative Splicing Database (ASD) splice patterns (SP) for LINC00838 Gene

No ASD Table

Relevant External Links for LINC00838 Gene

GeneLoc Exon Structure for
LINC00838
ECgene alternative splicing isoforms for
LINC00838

Expression for LINC00838 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LINC00838 Gene

mRNA differential expression in normal tissues according to GTEx for LINC00838 Gene

This gene is overexpressed in Testis (x52.8).

NURSA nuclear receptor signaling pathways regulating expression of LINC00838 Gene:

LINC00838

SOURCE GeneReport for Unigene cluster for LINC00838 Gene:

Hs.568804
genes like me logo Genes that share expression patterns with LINC00838: 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 LINC00838 Gene

Orthologs for LINC00838 Gene

Evolution for LINC00838 Gene

ENSEMBL:
Gene Tree for LINC00838 (if available)
TreeFam:
Gene Tree for LINC00838 (if available)

No data available for Orthologs for LINC00838 Gene

Paralogs for LINC00838 Gene

No data available for Paralogs for LINC00838 Gene

Variants for LINC00838 Gene

Sequence variations from dbSNP and Humsavar for LINC00838 Gene

SNP ID Clin Chr 10 pos Variation AA Info Type
rs1000155130 -- 33,760,918(-) T/G intron_variant
rs1000402968 -- 33,770,235(-) G/A intron_variant
rs1000684195 -- 33,769,277(-) A/G/T intron_variant
rs1000827998 -- 33,763,647(-) A/C intron_variant
rs1000908578 -- 33,765,273(-) T/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for LINC00838 Gene

Variant ID Type Subtype PubMed ID
esv3622856 CNV gain 21293372

Additional Variant Information for LINC00838 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC00838

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for LINC00838 Gene

Disorders for LINC00838 Gene

Additional Disease Information for LINC00838

No disorders were found for LINC00838 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LINC00838 Gene

Publications for LINC00838 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 56
  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 56

Products for LINC00838 Gene

Sources for LINC00838 Gene