Aliases for LINC01553 Gene

Subcategory (RNA class) for LINC01553 Gene

lncRNA

Number of RNA Genes sources:

2 / 17

Aliases for LINC01553 Gene

  • Long Intergenic Non-Protein Coding RNA 1553 2 3 5
  • LINC01553 2 5 165
  • C10orf40 3 4
  • Putative Uncharacterized Protein Encoded By LINC01553 4
  • Chromosome 10 Open Reading Frame 40 2
  • HSALNG0078227 164
  • AC023904.2 2

External Ids for LINC01553 Gene

Previous HGNC Symbols for LINC01553 Gene

  • C10orf40

Summaries for LINC01553 Gene

GeneCards Summary for LINC01553 Gene

LINC01553 (Long Intergenic Non-Protein Coding RNA 1553) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with LINC01553 include Cryptorchidism, Unilateral Or Bilateral.

Additional gene information for LINC01553 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LINC01553 Gene

Genomics for LINC01553 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LINC01553 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
GH10J059961 Promoter 0.6 EPDnew 600.7 0.0 -20 0.1 ZNF629 SCRT2 ATF2 ZBTB21 LINC01553 piR-43325-013 CCDC6 ANK3
GH10J059959 Enhancer 0.5 ENCODE 608.5 +1.3 1279 1.1 IKZF1 CEBPB EHMT2 GTF2A2 CEBPG IRF9 ZKSCAN8 LINC01553 piR-50437-056 CCDC6 ANK3
GH10J059960 Enhancer 0.4 ENCODE 600.7 -0.1 -125 0.2 ZNF629 SCRT2 ATF2 ZBTB21 LINC01553 piR-43325-013 CCDC6 ANK3
GH10J059964 Enhancer 1 Ensembl ENCODE 7.9 -5.7 -5660 4.1 CREB1 PRDM10 IKZF1 ZHX2 FOXA1 ZFX ATF7 EP300 ZBTB44 RFX1 CCDC6 LINC01553 piR-43325-013 ANK3
GH10J060003 Enhancer 0.7 Ensembl ENCODE 10.9 -43.0 -42987 1.8 TEAD4 USF1 YY1 NFIC ATF2 NANOG POU5F1 LINC01553 piR-43325-013 CCDC6 ANK3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC01553 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for LINC01553 Gene

Genomic Locations for LINC01553 Gene
chr10:59,955,430-59,960,913
(GRCh38/hg38)
Size:
5,484 bases
Orientation:
Minus strand
chr10:61,715,188-61,720,671
(GRCh37/hg19)
Size:
5,484 bases
Orientation:
Minus strand

Genomic View for LINC01553 Gene

Genes around LINC01553 on UCSC Golden Path with GeneCards custom track
LINC01553 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Cytogenetic band:
LINC01553 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC01553 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC01553 Gene

Proteins for LINC01553 Gene

  • Protein details for LINC01553 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    A4QN01-CJ040_HUMAN
    Recommended name:
    Putative uncharacterized protein encoded by LINC01553
    Protein Accession:
    A4QN01
    Secondary Accessions:
    • A6NCD0

    Protein attributes for LINC01553 Gene

    Size:
    128 amino acids
    Molecular mass:
    15288 Da
    Quaternary structure:
    No Data Available

neXtProt entry for LINC01553 Gene

Post-translational modifications for LINC01553 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for LINC01553 Gene

Domains & Families for LINC01553 Gene

Gene Families for LINC01553 Gene

Protein Domains for LINC01553 Gene

ProtoNet:
genes like me logo Genes that share domains with LINC01553: view

No data available for Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LINC01553 Gene

Function for LINC01553 Gene

Phenotypes From GWAS Catalog for LINC01553 Gene

Phenotypes for LINC01553 Gene

genes like me logo Genes that share phenotypes with LINC01553: view

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 LINC01553 Gene

Localization for LINC01553 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for LINC01553 Gene

Pathways & Interactions for LINC01553 Gene

PathCards logo

SuperPathways for LINC01553 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LINC01553 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for LINC01553 Gene

Drugs & Compounds for LINC01553 Gene

No Compound Related Data Available

Transcripts for LINC01553 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for LINC01553 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS000075A6C1_9606 lncRNA 1815 5

HGNC: 23524,

RefSeq: NR_024340,

Ensembl: ENST00000444900 (view in UCSC) ,

LncBook: HSALNT0163228,

LNCipedia: LINC01553:1,

URS00007CFB26_9606 lncRNA 4329 3

Ensembl: ENST00000521074 (view in UCSC) ,

LncBook: HSALNT0163227,

LNCipedia: LINC01553:2,

URS0000AA0861_9606 lncRNA 387 2

Ensembl: ENST00000430888 (view in UCSC) ,

LNCipedia: LINC01553:3,

LINC01553 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for LINC01553 Gene

1 REFSEQ mRNAs :
7 NCBI additional mRNA sequence :

Alternative Splicing Database (ASD) splice patterns (SP) for LINC01553 Gene

No ASD Table

Relevant External Links for LINC01553 Gene

GeneLoc Exon Structure for
LINC01553

Expression for LINC01553 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LINC01553 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LINC01553

genes like me logo Genes that share expression patterns with LINC01553: 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 LINC01553 Gene

Orthologs for LINC01553 Gene

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

Orthologs for LINC01553 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia C10orf40 31
  • 98 (a)
OneToOne
Species where no ortholog for LINC01553 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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 Vase (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 LINC01553 Gene

ENSEMBL:
Gene Tree for LINC01553 (if available)
TreeFam:
Gene Tree for LINC01553 (if available)

Paralogs for LINC01553 Gene

No data available for Paralogs for LINC01553 Gene

Variants for LINC01553 Gene

Additional dbSNP identifiers (rs#s) for LINC01553 Gene

Variation tolerance for LINC01553 Gene

Gene Damage Index Score: 0.79; 16.65% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LINC01553 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC01553

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP and Structural Variations from Database of Genomic Variants (DGV) for LINC01553 Gene

Disorders for LINC01553 Gene

MalaCards: The human disease database

(1) MalaCards diseases for LINC01553 Gene - From: DISEASES

Disorder Aliases PubMed IDs
cryptorchidism, unilateral or bilateral
  • undescended testis
- elite association - COSMIC cancer census association via MalaCards
genes like me logo Genes that share disorders with LINC01553: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LINC01553 Gene

Publications for LINC01553 Gene

  1. 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) 2 3
  2. The DNA sequence and comparative analysis of human chromosome 10. (PMID: 15164054) Deloukas P … Rogers J (Nature 2004) 4
  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

Products for LINC01553 Gene

Sources for LINC01553 Gene