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Aliases for LINC01546 Gene

Subcategory (RNA class) for LINC01546 Gene

non-coding RNA

Quality Score for this RNA gene is


Aliases for LINC01546 Gene

  • Long Intergenic Non-Protein Coding RNA 1546 2 3 5
  • CXorf28 3 4
  • Chromosome X Open Reading Frame 28 2

External Ids for LINC01546 Gene

Previous HGNC Symbols for LINC01546 Gene

  • CXorf28

Summaries for LINC01546 Gene

GeneCards Summary for LINC01546 Gene

LINC01546 (Long Intergenic Non-Protein Coding RNA 1546) is an RNA Gene, and is affiliated with the non-coding RNA class.

Additional gene information for LINC01546 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 LINC01546 Gene

Genomics for LINC01546 Gene

Regulatory Elements for LINC01546 Gene

Enhancers for LINC01546 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
GH0XH003270 0.7 Ensembl ENCODE 7.1 -0.1 -88 2.5 JUND JUN MAFK LINC01546 DHRSX-IT1 MXRA5 PIR40674
GH0XH003285 0.6 Ensembl ENCODE 6.1 +14.7 14700 1.8 FOS LINC01546 GC0XM003252 MXRA5
GH0XH003262 0.8 Ensembl ENCODE 0.4 -8.5 -8504 1.7 JUND EGR1 JUN ZNF26 FOS RUNX3 SETDB1 MXRA5 LINC01546 PIR40674
GH0XH003268 0.4 ENCODE 0.7 -2.8 -2846 0.2 JUND FOS MXRA5 LINC01546 PIR40674
GH0XH003183 1.1 FANTOM5 Ensembl ENCODE 0.2 -87.2 -87177 2.2 GATAD2A FOXA2 TEAD1 FOXA3 CEBPA TCF7 CEBPG PIR40674 LINC01546
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around LINC01546 on UCSC Golden Path with GeneCards custom track

Genomic Locations for LINC01546 Gene

Genomic Locations for LINC01546 Gene
12,834 bases
Plus strand

Genomic View for LINC01546 Gene

Genes around LINC01546 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LINC01546 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC01546 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC01546 Gene

Proteins for LINC01546 Gene

  • Protein details for LINC01546 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Putative uncharacterized protein encoded by LINC01546
    Protein Accession:

    Protein attributes for LINC01546 Gene

    62 amino acids
    Molecular mass:
    7222 Da
    Quaternary structure:
    No Data Available
    • Sequence=AA662182; Type=Frameshift; Positions=4, 8, 42; Evidence={ECO:0000305};

    Alternative splice isoforms for LINC01546 Gene


neXtProt entry for LINC01546 Gene

Post-translational modifications for LINC01546 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC01546 Gene

Domains & Families for LINC01546 Gene

Protein Domains for LINC01546 Gene


Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LINC01546: view

No data available for Gene Families , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for LINC01546 Gene

Function for LINC01546 Gene

Animal Model Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for LINC01546 Gene

Localization for LINC01546 Gene

Subcellular locations from

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 LINC01546 gene
Compartment Confidence
nucleus 2
cytosol 2
extracellular 1
mitochondrion 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for LINC01546 Gene

Pathways & Interactions for LINC01546 Gene

SuperPathways for LINC01546 Gene

No Data Available

Interacting Proteins for LINC01546 Gene

Gene Ontology (GO) - Biological Process for LINC01546 Gene


No data available for Pathways by source and SIGNOR curated interactions for LINC01546 Gene

Drugs & Compounds for LINC01546 Gene

No Compound Related Data Available

Transcripts for LINC01546 Gene

mRNA/cDNA for LINC01546 Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for LINC01546 Gene

No ASD Table

Relevant External Links for LINC01546 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for LINC01546 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LINC01546 Gene

NURSA nuclear receptor signaling pathways regulating expression of LINC01546 Gene:

genes like me logo Genes that share expression patterns with LINC01546: 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 , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for LINC01546 Gene

Orthologs for LINC01546 Gene

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

Orthologs for LINC01546 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia CXorf28 34
  • 62 (a)
Species where no ortholog for LINC01546 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 LINC01546 Gene

Gene Tree for LINC01546 (if available)
Gene Tree for LINC01546 (if available)

Paralogs for LINC01546 Gene

No data available for Paralogs for LINC01546 Gene

Variants for LINC01546 Gene

Sequence variations from dbSNP and Humsavar for LINC01546 Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type
rs1000156674 -- 3,270,036(+) GATTC(C/T)TCCTC upstream-variant-2KB
rs1000378657 -- 3,277,515(+) ATAAC(A/G)AGGTG intron-variant
rs1000752526 -- 3,273,672(+) GGGTT(A/G)GTTCC intron-variant
rs1000826563 -- 3,274,145(+) TCTGG(A/G)TATTA intron-variant
rs1001107684 -- 3,284,899(+) TAGGC(A/G)TTGGT downstream-variant-500B

Structural Variations from Database of Genomic Variants (DGV) for LINC01546 Gene

Variant ID Type Subtype PubMed ID
esv33968 CNV loss 17666407
esv2758855 CNV gain 17122850

Variation tolerance for LINC01546 Gene

Gene Damage Index Score: 2.89; 48.60% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LINC01546 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LINC01546 Gene

Disorders for LINC01546 Gene

Relevant External Links for LINC01546

Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for LINC01546 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LINC01546 Gene

Publications for LINC01546 Gene

  1. The DNA sequence of the human X chromosome. (PMID: 15772651) Ross MT … Bentley DR (Nature 2005) 4 60
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 4 60
  3. 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) 4 60

Products for LINC01546 Gene

Sources for LINC01546 Gene

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