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Aliases for NICN1 Gene

Aliases for NICN1 Gene

  • Nicolin 1 2 3 5
  • Tubulin Polyglutamylase Complex Subunit 5 3 4
  • NPCEDRG 3 4
  • PGs5 3 4

External Ids for NICN1 Gene

Previous GeneCards Identifiers for NICN1 Gene

  • GC03P048862
  • GC03M049314
  • GC03M049419
  • GC03M049435

Summaries for NICN1 Gene

Entrez Gene Summary for NICN1 Gene

  • This protein encoded by this gene localizes to the nucleus and is expressed in numerous tissues including brain, testis, liver, and kidney. This refseq contains genomic sequence in its 3' UTR which is not supported by experimental evidence. Computer predictions indicate that this region of the 3' UTR contains hairpin-forming self-complementary sequence which is possibly excised after transcription. This gene has a pseudogene on chromosome X. [provided by RefSeq, Jul 2008]

GeneCards Summary for NICN1 Gene

NICN1 (Nicolin 1) is a Protein Coding gene.

No data available for UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NICN1 Gene

Genomics for NICN1 Gene

Regulatory Elements for NICN1 Gene

Promoters for NICN1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around NICN1 on UCSC Golden Path with GeneCards custom track

Genomic Location for NICN1 Gene

Chromosome:
3
Start:
49,422,333 bp from pter
End:
49,429,326 bp from pter
Size:
6,994 bases
Orientation:
Minus strand

Genomic View for NICN1 Gene

Genes around NICN1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NICN1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NICN1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NICN1 Gene

Proteins for NICN1 Gene

  • Protein details for NICN1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BSH3-NICN1_HUMAN
    Recommended name:
    Nicolin-1
    Protein Accession:
    Q9BSH3
    Secondary Accessions:
    • Q8IZQ2

    Protein attributes for NICN1 Gene

    Size:
    213 amino acids
    Molecular mass:
    24202 Da
    Quaternary structure:
    • Part of the neuronal tubulin polyglutamylase complex which contains TPGS1, TPGS2, TTLL1, LRRC49 and NICN1.

    Alternative splice isoforms for NICN1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for NICN1 Gene

Proteomics data for NICN1 Gene at MOPED

Post-translational modifications for NICN1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for NICN1 Gene

No data available for DME Specific Peptides for NICN1 Gene

Domains & Families for NICN1 Gene

Protein Domains for NICN1 Gene

ProtoNet:

Suggested Antigen Peptide Sequences for NICN1 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with NICN1: view

No data available for Gene Families and UniProtKB/Swiss-Prot for NICN1 Gene

Function for NICN1 Gene

Animal Model Products

CRISPR Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for NICN1 Gene

Localization for NICN1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NICN1 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for NICN1 Gene COMPARTMENTS Subcellular localization image for NICN1 gene
Compartment Confidence
nucleus 4
cytoskeleton 3
mitochondrion 2
cytosol 1
extracellular 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for NICN1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005874 microtubule IEA --
genes like me logo Genes that share ontologies with NICN1: view

Pathways & Interactions for NICN1 Gene

SuperPathways for NICN1 Gene

No Data Available

Interacting Proteins for NICN1 Gene

Gene Ontology (GO) - Biological Process for NICN1 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for NICN1 Gene

Drugs & Compounds for NICN1 Gene

No Compound Related Data Available

Transcripts for NICN1 Gene

Unigene Clusters for NICN1 Gene

Nicolin 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for NICN1 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b ^ 3a · 3b ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b · 6c
SP1: - -
SP2: - - - -
SP3: -
SP4:
SP5:
SP6: -

Relevant External Links for NICN1 Gene

GeneLoc Exon Structure for
NICN1
ECgene alternative splicing isoforms for
NICN1

Expression for NICN1 Gene

mRNA expression in normal human tissues for NICN1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

SOURCE GeneReport for Unigene cluster for NICN1 Gene Hs.191460

mRNA Expression by UniProt/SwissProt for NICN1 Gene

Q9BSH3-NICN1_HUMAN
Tissue specificity: High expression level is found in brain, testis, liver and kidney. Weak expression in spleen, leukocytes, small intestine and colon.
genes like me logo Genes that share expression patterns with NICN1: view

Primer Products

In Situ Assay Products

No data available for mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression and Protein tissue co-expression partners for NICN1 Gene

Orthologs for NICN1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for NICN1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NICN1 35
  • 99.68 (n)
  • 99.51 (a)
NICN1 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia NICN1 36
  • 93 (a)
OneToOne
NICN1 35
  • 90.3 (n)
  • 92.96 (a)
dog
(Canis familiaris)
Mammalia NICN1 35
  • 91.86 (n)
  • 94.37 (a)
NICN1 36
  • 94 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Nicn1 16
Nicn1 35
  • 86.54 (n)
  • 89.2 (a)
Nicn1 36
  • 89 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia NICN1 36
  • 76 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia NICN1 36
  • 64 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Nicn1 35
  • 86.7 (n)
  • 90.14 (a)
lizard
(Anolis carolinensis)
Reptilia NICN1 36
  • 61 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia mst1r 35
  • 61.35 (n)
  • 60.09 (a)
zebrafish
(Danio rerio)
Actinopterygii nicn1 35
  • 55.5 (n)
  • 51.2 (a)
nicn1 36
  • 50 (a)
OneToOne
Species with no ortholog for NICN1:
  • 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)
  • 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)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for NICN1 Gene

ENSEMBL:
Gene Tree for NICN1 (if available)
TreeFam:
Gene Tree for NICN1 (if available)

Paralogs for NICN1 Gene

Pseudogenes.org Pseudogenes for NICN1 Gene

genes like me logo Genes that share paralogs with NICN1: view

No data available for Paralogs for NICN1 Gene

Variants for NICN1 Gene

Sequence variations from dbSNP and Humsavar for NICN1 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
rs6762593 -- 49,426,493(+) CAAAG(A/G)TCAAA intron-variant
rs11130191 -- 49,429,203(-) AAGGC(C/T)CCGTA reference, missense
rs11130192 -- 49,429,773(+) CTACC(C/G)GCGAG upstream-variant-2KB
rs9866282 -- 49,430,216(+) gcagc(C/G)tcgac upstream-variant-2KB
rs35319877 -- 49,428,755(+) GTTTT(-/G)GGGGT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for NICN1 Gene

Variant ID Type Subtype PubMed ID
nsv834687 CNV Loss 17160897

Variation tolerance for NICN1 Gene

Residual Variation Intolerance Score: 32% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.30; 25.92% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for NICN1 Gene

HapMap Linkage Disequilibrium report
NICN1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NICN1 Gene

Disorders for NICN1 Gene

Relevant External Links for NICN1

Genetic Association Database (GAD)
NICN1
Human Genome Epidemiology (HuGE) Navigator
NICN1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
NICN1

No disorders were found for NICN1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NICN1 Gene

Publications for NICN1 Gene

  1. Cloning and characterization of the mammalian-specific nicolin 1 gene (NICN1) encoding a nuclear 24 kDa protein. (PMID: 12392556) Backofen B. … Leeb T. (Eur. J. Biochem. 2002) 2 3 4 23 67
  2. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  3. Cloning and characterization of the NPCEDRG gene promoter. (PMID: 20821255) Hou D. … Chen Z. (Mol. Cell. Biochem. 2011) 3
  4. Genetic susceptibility to distinct bladder cancer subphenotypes. (PMID: 19692168) Guey L.T. … Malats N. (Eur. Urol. 2010) 3
  5. Association analysis of 3p21 with Crohn's disease in a New Zealand population. (PMID: 20307617) Morgan A.R. … Ferguson L.R. (Hum. Immunol. 2010) 3

Products for NICN1 Gene

Sources for NICN1 Gene

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