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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.

No data available for Entrez Gene 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

Regulatory Elements for LINC01558 Gene

Enhancers for LINC01558 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
GH06F167825 1.2 Ensembl ENCODE 11.4 -32.6 -32584 8.6 PKNOX1 ARNT CREB3L1 WRNIP1 SIN3A ARID4B FEZF1 DMAP1 ZNF2 KLF13 LINC01558 AFDN LOC441179 PIR39756
GH06F167711 0.4 ENCODE 11.2 +84.8 84837 1.4 HLF AFDN LINC01558 LOC105378132 LOC100422263
GH06F167760 0.7 Ensembl ENCODE 11.1 +34.9 34867 2.1 MLX ZFP64 ARID4B DMAP1 ZNF48 YY1 SLC30A9 SP5 MXD4 PPARG LINC01558 AFDN LOC100422263 LOC105378132
GH06F167792 0.8 ENCODE 11 +3.3 3309 1.4 ZNF263 CTCF ZNF654 FOXA3 REST RAD21 TCF7 ZNF580 NR2F6 LINC01558 LOC441179 LOC441178 LOC100422263
GH06F167847 0.9 Ensembl 10.9 -50.6 -50642 0.2 HDAC1 ARNT ZNF2 RARA ZNF335 ZNF366 GATA2 SCRT2 CREM SMARCA5 LINC01558 LOC441179 AFDN PIR39756
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around LINC01558 on UCSC Golden Path with GeneCards custom track

Promoters for LINC01558 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001888096 159 600 MNT RAD21 NR2F2 YY1 ATF3 POLR2A SMARCA4 PRDM10

Genomic Location for LINC01558 Gene

Chromosome:
6
Start:
167,784,537 bp from pter
End:
167,796,859 bp from pter
Size:
12,323 bases
Orientation:
Minus strand

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

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

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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

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 COMPARTMENTS 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

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 :

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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 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 and mRNA Expression by UniProt/SwissProt 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 35
  • 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 Sequence Context AA Info Type
rs111292154 -- 167,791,451(+) ACCAG(G/T)GCACC intron-variant
rs111463014 -- 167,791,082(+) CAGCC(C/T)GTTGA nc-transcript-variant
rs111495681 -- 167,788,930(+) TCACA(C/T)GTGAC intron-variant
rs111655903 -- 167,791,088(+) GTTGA(A/C)CACAT nc-transcript-variant
rs111658830 -- 167,789,227(+) TTTCT(C/T)CTTCC intron-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)

Relevant External Links 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

Relevant External Links for LINC01558

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
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 Res. 1999) 2 3 4 64
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  3. The DNA sequence and analysis of human chromosome 6. (PMID: 14574404) Mungall A.J. … Beck S. (Nature 2003) 4 64
  4. 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 LINC01558 Gene

Sources for LINC01558 Gene

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