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Aliases for LINC01558 Gene

Subcategory (RNA class) for LINC01558 Gene

non-coding RNA

Quality Score for this RNA gene is

3

Aliases for LINC01558 Gene

  • Long Intergenic Non-Protein Coding RNA 1558 2 3 5
  • Long Intergenic Non-Protein Coding RNA 1557 2 3
  • C6orf123 3 4
  • Chromosome 6 Open Reading Frame 123 2
  • Protein HGC6.2 4
  • DJ431P23.4 3
  • LINC01557 3
  • HGC6.2 3

External Ids for LINC01558 Gene

Previous HGNC Symbols for LINC01558 Gene

  • C6orf123
  • LINC01557

Summaries for LINC01558 Gene

GeneCards Summary for LINC01558 Gene

LINC01558 (Long Intergenic Non-Protein Coding RNA 1558) is an RNA Gene, and is affiliated with the non-coding RNA class.

Additional gene information for LINC01558 Gene

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 LINC01558 Gene

Genomics for LINC01558 Gene

GeneHancer (GH) Regulatory Elements for LINC01558 Gene

Promoters and enhancers for LINC01558 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
GH06I167795 Enhancer 0.9 Ensembl ENCODE 557.8 +0.2 211 3 TAF1 MAX CEBPG RAD21 YY1 GATA3 POLR2A ZBTB2 RXRA NRF1 LOC441179 LINC01558
GH06I167798 Enhancer 0.4 ENCODE 550.8 -1.8 -1840 0.1 GATA2 HMBOX1 LINC01558 AFDN-DT
GH06I167825 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE dbSUPER 11.4 -32.6 -32583 8.6 PKNOX1 FOXA2 SMAD1 ARNT ARID4B FEZF1 DMAP1 ZNF2 YY1 ZNF766 AFDN LINC01558 LOC441179 AFDN-DT PIR39756
GH06I167675 Enhancer 1.4 FANTOM5 Ensembl ENCODE 10.5 +119.5 119529 4.4 FOXA2 MLX ARID4B SIN3A DMAP1 ZNF48 ETS1 YY1 TCF12 SLC30A9 LINC02538 LINC01558 UNC93A LOC105378131
GH06I167854 Enhancer 1.4 Ensembl ENCODE dbSUPER 10.4 -60.2 -60233 5.1 HDGF PKNOX1 SMAD1 FOXA2 MLX ARNT ARID4B FEZF1 POLR2B ZNF766 LINC01558 FRMD1 KIF25-AS1 AFDN PIR39756
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around LINC01558 on UCSC Golden Path with GeneCards custom track

Genomic Locations for LINC01558 Gene

Genomic Locations for LINC01558 Gene
chr6:167,784,537-167,796,859
(GRCh38/hg38)
Size:
12,323 bases
Orientation:
Minus strand
chr6:168,185,217-168,197,539
(GRCh37/hg19)

Genomic View for LINC01558 Gene

Genes around LINC01558 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LINC01558 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC01558 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC01558 Gene

Proteins for LINC01558 Gene

  • Protein details for LINC01558 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y6Z2-CF123_HUMAN
    Recommended name:
    Uncharacterized protein encoded by LINC01558
    Protein Accession:
    Q9Y6Z2
    Secondary Accessions:
    • E1P5C8
    • Q5TIG8

    Protein attributes for LINC01558 Gene

    Size:
    57 amino acids
    Molecular mass:
    6189 Da
    Quaternary structure:
    No Data Available

neXtProt entry for LINC01558 Gene

Post-translational modifications for LINC01558 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC01558 Gene

Domains & Families for LINC01558 Gene

Protein Domains for LINC01558 Gene

ProtoNet:

Suggested Antigen Peptide Sequences for LINC01558 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LINC01558: view

No data available for Gene Families and UniProtKB/Swiss-Prot for LINC01558 Gene

Function for LINC01558 Gene

Phenotypes From GWAS Catalog for LINC01558 Gene

Gene Ontology (GO) - Molecular Function for LINC01558 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
genes like me logo Genes that share ontologies with LINC01558: view

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for LINC01558 Gene

Localization for LINC01558 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 LINC01558 gene
Compartment Confidence
nucleus 2
cytosol 2
extracellular 1

Gene Ontology (GO) - Cellular Components for LINC01558 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
genes like me logo Genes that share ontologies with LINC01558: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from the Human Protein Atlas (HPA) for LINC01558 Gene

Pathways & Interactions for LINC01558 Gene

SuperPathways for LINC01558 Gene

No Data Available

Interacting Proteins for LINC01558 Gene

Gene Ontology (GO) - Biological Process for LINC01558 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008150 biological_process ND --
genes like me logo Genes that share ontologies with LINC01558: view

No data available for Pathways by source and SIGNOR curated interactions for LINC01558 Gene

Drugs & Compounds for LINC01558 Gene

No Compound Related Data Available

Transcripts for LINC01558 Gene

mRNA/cDNA for LINC01558 Gene

(1) REFSEQ mRNAs :
(6) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for LINC01558 Gene

No ASD Table

Relevant External Links for LINC01558 Gene

GeneLoc Exon Structure for
LINC01558
ECgene alternative splicing isoforms for
LINC01558

Expression for LINC01558 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LINC01558 Gene

NURSA nuclear receptor signaling pathways regulating expression of LINC01558 Gene:

LINC01558
genes like me logo Genes that share expression patterns with LINC01558: view

Primer Products

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 , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for LINC01558 Gene

Orthologs for LINC01558 Gene

This gene was present in the common ancestor of human and chimp.

Orthologs for LINC01558 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia C6orf123 34
  • 95 (a)
OneToOne
Species where no ortholog for LINC01558 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)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • 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)
  • zebrafish (Danio rerio)

Evolution for LINC01558 Gene

ENSEMBL:
Gene Tree for LINC01558 (if available)
TreeFam:
Gene Tree for LINC01558 (if available)

Paralogs for LINC01558 Gene

No data available for Paralogs for LINC01558 Gene

Variants for LINC01558 Gene

Sequence variations from dbSNP and Humsavar for LINC01558 Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs1000213800 -- 167,784,937(-) T/C non_coding_transcript_variant
rs1000273652 -- 167,793,678(-) G/A intron_variant
rs1000338865 -- 167,790,436(-) C/A intron_variant
rs1000494830 -- 167,796,066(-) C/G intron_variant
rs1000567241 -- 167,785,237(-) A/C non_coding_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for LINC01558 Gene

Variant ID Type Subtype PubMed ID
dgv1852e212 CNV loss 25503493
dgv27e196 CNV duplication 17116639
esv2422263 CNV duplication 17116639
esv2761051 CNV gain 21179565
esv3576253 CNV gain 25503493
nsv1019214 CNV gain 25217958
nsv1027114 CNV gain 25217958
nsv509172 CNV insertion 20534489

Variation tolerance for LINC01558 Gene

Gene Damage Index Score: 4.56; 64.97% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LINC01558 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC01558

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LINC01558 Gene

Disorders for LINC01558 Gene

Additional Disease Information for LINC01558

No disorders were found for LINC01558 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LINC01558 Gene

Publications for LINC01558 Gene

  1. Complete DNA sequence and characterization of a 330-kb VNTR-rich region on chromosome 6q27 that is commonly deleted in ovarian cancer. (PMID: 10382971) Minaguchi T … Nakamura Y (DNA research : an international journal for rapid publication of reports on genes and genomes 1999) 2 3 4 58
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  3. The DNA sequence and analysis of human chromosome 6. (PMID: 14574404) Mungall AJ … Beck S (Nature 2003) 4 58
  4. 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 58
  5. Systematic interactome mapping of acute lymphoblastic leukemia cancer gene products reveals EXT-1 tumor suppressor as a Notch1 and FBWX7 common interactor. (PMID: 27229929) Daakour S … Twizere JC (BMC cancer 2016) 3

Products for LINC01558 Gene

Sources for LINC01558 Gene

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