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Aliases for LINC01548 Gene

Subcategory (RNA class) for LINC01548 Gene

non-coding RNA

Quality Score for this RNA gene is

3

Aliases for LINC01548 Gene

  • Long Intergenic Non-Protein Coding RNA 1548 2 3 5
  • C21orf54 3 4
  • Chromosome 21 Open Reading Frame 54 2
  • HCG2045804 3

External Ids for LINC01548 Gene

Previous HGNC Symbols for LINC01548 Gene

  • C21orf54

Summaries for LINC01548 Gene

GeneCards Summary for LINC01548 Gene

LINC01548 (Long Intergenic Non-Protein Coding RNA 1548) 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 LINC01548 Gene

Genomics for LINC01548 Gene

Regulatory Elements for LINC01548 Gene

Enhancers for LINC01548 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
GH21F033093 2 VISTA Ensembl 10.5 +75.4 75443 3.1 SMARCA4 RNF2 SCRT2 SPI1 ENSG00000227757 OLIG1 LOC101928107 LINC01548
GH21F033323 1.2 ENCODE 16.2 -154.5 -154528 2.4 HDGF PKNOX1 ARNT WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF416 EVA1C RPS5P2 LINC01548 ENSG00000226433 ENSG00000238220 OR7E23P IFNAR1 CRYZL1 TCP10L IFNAR2
GH21F033894 1.2 Ensembl ENCODE 16.2 -724.3 -724275 1.4 ATF1 PKNOX1 ZNF133 GLI4 ZNF48 RAD21 EGR1 ZNF366 SCRT2 ZNF143 ATP5O LINC01548 ENSG00000226433 C21orf140 LINC00649 GC21P033897 CRYZL1
GH21F032769 1.2 ENCODE 16.2 +399.3 399296 3.9 CREB3L1 FEZF1 DMAP1 YY1 SLC30A9 ZNF416 ZNF143 ZNF263 SP3 NFYC EVA1C URB1 ENSG00000238220 OR7E23P ENSG00000226433 LINC01548 PAXBP1-AS1 TCP10L C21orf62 PAXBP1
GH21F033196 1.5 FANTOM5 Ensembl ENCODE 12.3 -28.1 -28089 4.5 PKNOX1 ATF1 BRCA1 ZNF2 YY1 ZNF766 ZNF143 FOS DEK ZNF263 IFNAR2 LINC01548 IFNGR2 ENSG00000249624 ENSG00000226433 DNAJC28 IL10RB GART IFNAR1 OLIG1
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around LINC01548 on UCSC Golden Path with GeneCards custom track

Genomic Location for LINC01548 Gene

Chromosome:
21
Start:
33,165,470 bp from pter
End:
33,170,649 bp from pter
Size:
5,180 bases
Orientation:
Minus strand

Genomic View for LINC01548 Gene

Genes around LINC01548 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LINC01548 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC01548 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC01548 Gene

Proteins for LINC01548 Gene

  • Protein details for LINC01548 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    A6NM66-CU054_HUMAN
    Recommended name:
    Uncharacterized protein encoded by LINC01548
    Protein Accession:
    A6NM66

    Protein attributes for LINC01548 Gene

    Size:
    108 amino acids
    Molecular mass:
    11668 Da
    Quaternary structure:
    No Data Available

neXtProt entry for LINC01548 Gene

Post-translational modifications for LINC01548 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC01548 Gene

Domains & Families for LINC01548 Gene

Protein Domains for LINC01548 Gene

ProtoNet:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LINC01548: view

No data available for Gene Families , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for LINC01548 Gene

Function for LINC01548 Gene

Phenotypes for LINC01548 Gene

genes like me logo Genes that share phenotypes with LINC01548: 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 LINC01548 Gene

Localization for LINC01548 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 LINC01548 gene
Compartment Confidence
extracellular 2
nucleus 2
cytosol 2

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for LINC01548 Gene

Pathways & Interactions for LINC01548 Gene

SuperPathways for LINC01548 Gene

No Data Available

Interacting Proteins for LINC01548 Gene

Gene Ontology (GO) - Biological Process for LINC01548 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LINC01548 Gene

Transcripts for LINC01548 Gene

mRNA/cDNA for LINC01548 Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for LINC01548 Gene

No ASD Table

Relevant External Links for LINC01548 Gene

GeneLoc Exon Structure for
LINC01548
ECgene alternative splicing isoforms for
LINC01548

Expression for LINC01548 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LINC01548 Gene

NURSA nuclear receptor signaling pathways regulating expression of LINC01548 Gene:

LINC01548
genes like me logo Genes that share expression patterns with LINC01548: 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 and mRNA Expression by UniProt/SwissProt for LINC01548 Gene

Orthologs for LINC01548 Gene

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

Orthologs for LINC01548 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia C21orf54 35
  • 97 (a)
OneToOne
Species where no ortholog for LINC01548 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 LINC01548 Gene

ENSEMBL:
Gene Tree for LINC01548 (if available)
TreeFam:
Gene Tree for LINC01548 (if available)

Paralogs for LINC01548 Gene

No data available for Paralogs for LINC01548 Gene

Variants for LINC01548 Gene

Sequence variations from dbSNP and Humsavar for LINC01548 Gene

SNP ID Clin Chr 21 pos Sequence Context AA Info Type
rs111738678 -- 33,167,598(+) GGAGG(C/T)TAAGG intron-variant
rs111838317 -- 33,168,270(+) GTTTC(A/G)TGTTC intron-variant
rs112065880 -- 33,171,328(+) TTGTC(A/G)GGGGC upstream-variant-2KB
rs112462013 -- 33,167,694(+) CCAGG(C/T)GTGGT intron-variant
rs112735235 -- 33,168,589(+) GATGT(G/T)CAGGC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LINC01548 Gene

Variant ID Type Subtype PubMed ID
esv3568157 CNV loss 25503493
nsv1114286 CNV deletion 24896259

Variation tolerance for LINC01548 Gene

Gene Damage Index Score: 1.27; 25.27% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LINC01548 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC01548

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LINC01548 Gene

Disorders for LINC01548 Gene

Relevant External Links for LINC01548

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LINC01548

No disorders were found for LINC01548 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LINC01548 Gene

Publications for LINC01548 Gene

  1. The DNA sequence of human chromosome 21. (PMID: 10830953) Hattori M. … Yaspo M.-L. (Nature 2000) 3 4 64
  2. A genome-wide association study of inflammatory biomarker changes in response to fenofibrate treatment in the Genetics of Lipid Lowering Drug and Diet Network. (PMID: 22228203) Aslibekyan S. … Arnett D.K. (Pharmacogenet. Genomics 2012) 3 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
  4. The sequence of the human genome. (PMID: 11181995) Venter J.C. … Zhu X. (Science 2001) 3 64

Products for LINC01548 Gene

Sources for LINC01548 Gene

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