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Aliases for LINC01590 Gene

Subcategory (RNA class) for LINC01590 Gene

non-coding RNA

Quality Score for this RNA gene is

3

Aliases for LINC01590 Gene

  • Long Intergenic Non-Protein Coding RNA 1590 2 3 4
  • C6orf164 3 4
  • Chromosome 6 Open Reading Frame 164 2
  • Small Integral Membrane Protein 8 5
  • DJ102H19.4 3
  • SMIM8 5

External Ids for LINC01590 Gene

Previous HGNC Symbols for LINC01590 Gene

  • C6orf164

Previous GeneCards Identifiers for LINC01590 Gene

  • GC06P087397

Summaries for LINC01590 Gene

GeneCards Summary for LINC01590 Gene

LINC01590 (Long Intergenic Non-Protein Coding RNA 1590) is an RNA Gene, and is affiliated with the non-coding RNA class.

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LINC01590 Gene

Genomics for LINC01590 Gene

Regulatory Elements for LINC01590 Gene

Enhancers for LINC01590 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH06G087697 1.8 FANTOM5 ENCODE dbSUPER 18.2 +377.8 377775 6.6 CREB3L1 AGO1 ZFP64 FEZF1 DMAP1 YY1 ZNF143 ZNF263 SP3 TBX21 SLC35A1 ZNF292 LINC01590 AKIRIN2 RARS2 SMIM8 GC06M087700 GC06P087659
GH06G087321 1.1 ENCODE 29.3 +0.1 54 1.4 HDGF ARNT CREB3L1 AGO1 ARID4B SIN3A DMAP1 ZNF2 ZBTB7B YY1 ZNF292 LINC01590 SMIM8 SLC35A1 GJB7
GH06G087755 1.9 FANTOM5 Ensembl ENCODE dbSUPER 15 +434.2 434234 2.2 ZFP64 FEZF1 YY1 TCF12 GATA2 CBX5 ZNF143 FOS ZNF202 JUNB AKIRIN2 RARS2 LINC01590 ENSG00000272008 ENSG00000238628 ORC3 GC06P087742 LOC101928911
GH06G087151 1.4 ENCODE dbSUPER 14 -168.2 -168183 6.4 MLX CREB3L1 AGO1 ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF416 ZNF143 ZNF292 SLC35A1 SMIM8 LINC01590 CGA ENSG00000272008
GH06G087213 1.2 Ensembl ENCODE 13.2 -108.5 -108541 2.0 HDAC1 HDGF PKNOX1 FOXA2 ZFP64 SIN3A TCF12 ETV6 FOS RELB SMIM8 LINC01590 CGA SLC35A1 ORC3 GC06P087226 LOC100418923
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around LINC01590 on UCSC Golden Path with GeneCards custom track

Promoters for LINC01590 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000199742 118 1399 HDGF ARNT AGO1 ARID4B SIN3A DMAP1 ZNF2 ZBTB7B YY1 CBX5

Genomic Location for LINC01590 Gene

Chromosome:
6
Start:
87,322,583 bp from pter
End:
87,399,749 bp from pter
Size:
77,167 bases
Orientation:
Plus strand

Genomic View for LINC01590 Gene

Genes around LINC01590 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LINC01590 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC01590 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC01590 Gene

Proteins for LINC01590 Gene

  • Protein details for LINC01590 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5TEZ4-CF164_HUMAN
    Recommended name:
    Putative uncharacterized protein encoded by LINC01590
    Protein Accession:
    Q5TEZ4
    Secondary Accessions:
    • A6NM89

    Protein attributes for LINC01590 Gene

    Size:
    76 amino acids
    Molecular mass:
    8388 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=CAB71117.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

neXtProt entry for LINC01590 Gene

Post-translational modifications for LINC01590 Gene

No Post-translational modifications

Other Protein References for LINC01590 Gene

No data available for DME Specific Peptides for LINC01590 Gene

Domains & Families for LINC01590 Gene

Protein Domains for LINC01590 Gene

ProtoNet:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LINC01590: view

No data available for Gene Families , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for LINC01590 Gene

Function for LINC01590 Gene

Phenotypes for LINC01590 Gene

genes like me logo Genes that share phenotypes with LINC01590: view

Animal Model Products

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 LINC01590 Gene

Localization for LINC01590 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LINC01590 gene
Compartment Confidence
extracellular 1
mitochondrion 1
peroxisome 1
nucleus 1
cytosol 1

Gene Ontology (GO) - Cellular Components for LINC01590 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with LINC01590: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for LINC01590 Gene

Pathways & Interactions for LINC01590 Gene

SuperPathways for LINC01590 Gene

No Data Available

Interacting Proteins for LINC01590 Gene

Gene Ontology (GO) - Biological Process for LINC01590 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LINC01590 Gene

Drugs & Compounds for LINC01590 Gene

No Compound Related Data Available

Transcripts for LINC01590 Gene

mRNA/cDNA for LINC01590 Gene

(1) REFSEQ mRNAs :
(9) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for LINC01590 Gene

No ASD Table

Relevant External Links for LINC01590 Gene

GeneLoc Exon Structure for
LINC01590
ECgene alternative splicing isoforms for
LINC01590

Expression for LINC01590 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LINC01590 Gene

NURSA nuclear receptor signaling pathways regulating expression of LINC01590 Gene:

LINC01590

Evidence on tissue expression from TISSUES for LINC01590 Gene

  • Heart(2.9)
genes like me logo Genes that share expression patterns with LINC01590: view

No data available for 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 and Phenotype-based relationships between genes and organs from Gene ORGANizer for LINC01590 Gene

Orthologs for LINC01590 Gene

This gene was present in the common ancestor of chordates.

Orthologs for LINC01590 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia -- 35
  • 98 (a)
OneToMany
cow
(Bos Taurus)
Mammalia SMIM8 35
  • 91 (a)
OneToMany
mouse
(Mus musculus)
Mammalia Smim8 35
  • 89 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 84 (a)
OneToMany
dog
(Canis familiaris)
Mammalia -- 35
  • 74 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 70 (a)
OneToMany
chicken
(Gallus gallus)
Aves C6ORF162 35
  • 77 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 78 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii smim8 35
  • 61 (a)
OneToMany
Species where no ortholog for LINC01590 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for LINC01590 Gene

ENSEMBL:
Gene Tree for LINC01590 (if available)
TreeFam:
Gene Tree for LINC01590 (if available)

Paralogs for LINC01590 Gene

No data available for Paralogs for LINC01590 Gene

Variants for LINC01590 Gene

Sequence variations from dbSNP and Humsavar for LINC01590 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs1000766786 -- 87,396,290(+) AATTC(G/T)TATAC upstream-variant-2KB
rs1001140187 -- 87,399,728(+) AGACA(-/TTAAT)TTAAA nc-transcript-variant
rs1001399048 -- 87,399,775(+) TAACC(G/T)ACTCA downstream-variant-500B
rs1002403264 -- 87,398,257(+) AGCTC(C/T)CTGCC nc-transcript-variant
rs1002431336 -- 87,397,777(+) ATTCC(C/T)ATAAC nc-transcript-variant

Structural Variations from Database of Genomic Variants (DGV) for LINC01590 Gene

Variant ID Type Subtype PubMed ID
nsv830722 CNV gain 17160897

Variation tolerance for LINC01590 Gene

Gene Damage Index Score: 0.20; 4.43% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LINC01590 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC01590

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LINC01590 Gene

Disorders for LINC01590 Gene

Relevant External Links for LINC01590

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LINC01590

No disorders were found for LINC01590 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LINC01590 Gene

Publications for LINC01590 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  2. The DNA sequence and analysis of human chromosome 6. (PMID: 14574404) Mungall A.J. … Beck S. (Nature 2003) 4 64
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3 64

Products for LINC01590 Gene

Sources for LINC01590 Gene

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