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Aliases for NOVA1 Gene

Aliases for NOVA1 Gene

  • NOVA Alternative Splicing Regulator 1 2 3 5
  • Neuro-Oncological Ventral Antigen 1 2 3 4
  • Ventral Neuron-Specific Protein 1 3 4
  • Onconeural Ventral Antigen 1 3 4
  • Paraneoplastic Ri Antigen 3 4
  • RNA-Binding Protein Nova-1 3
  • Nova-1 3

External Ids for NOVA1 Gene

Previous GeneCards Identifiers for NOVA1 Gene

  • GC14M024286
  • GC14M020702
  • GC14M024905
  • GC14M025984
  • GC14M026915
  • GC14M007031

Summaries for NOVA1 Gene

Entrez Gene Summary for NOVA1 Gene

  • This gene encodes a neuron-specific RNA-binding protein, a member of the Nova family of paraneoplastic disease antigens, that is recognized and inhibited by paraneoplastic antibodies. These antibodies are found in the sera of patients with paraneoplastic opsoclonus-ataxia, breast cancer, and small cell lung cancer. Alternatively spliced transcripts encoding distinct isoforms have been described. [provided by RefSeq, Jul 2008]

GeneCards Summary for NOVA1 Gene

NOVA1 (NOVA Alternative Splicing Regulator 1) is a Protein Coding gene. Diseases associated with NOVA1 include Partial Fetal Alcohol Syndrome. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and RNA binding. An important paralog of this gene is NOVA2.

UniProtKB/Swiss-Prot for NOVA1 Gene

  • May regulate RNA splicing or metabolism in a specific subset of developing neurons.

Gene Wiki entry for NOVA1 Gene

Additional gene information for NOVA1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NOVA1 Gene

Genomics for NOVA1 Gene

GeneHancer (GH) Regulatory Elements for NOVA1 Gene

Promoters and enhancers for NOVA1 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH14J026595 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE 650.7 +0.2 200 3.3 PKNOX1 SIN3A ZNF335 GLIS2 ZNF366 EGR2 SP3 NFYC GATAD2B ZNF398 LINC02588 NOVA1 ENSG00000262119
GH14J026622 Enhancer 0.3 ENCODE 12 -24.7 -24654 1.6 EZH2 NOVA1 LINC02588 LINC02293
GH14J026621 Enhancer 0.2 ENCODE 12 -23.8 -23756 0.2 NOVA1 LINC02588 LINC02293
GH14J026524 Enhancer 0.3 ENCODE 5.7 +71.8 71753 3 PRDM6 NOVA1 LINC02293 ENSG00000262119 LOC105370418
GH14J026522 Enhancer 0.2 ENCODE 5.3 +74.5 74539 0.9 NOVA1 ENSG00000262119 LOC105370418
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around NOVA1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the NOVA1 gene promoter:
  • NRSF form 1
  • NRSF form 2
  • FAC1
  • LHX3b
  • Lhx3a
  • C/EBPalpha

Genomic Locations for NOVA1 Gene

Genomic Locations for NOVA1 Gene
154,662 bases
Minus strand
154,662 bases
Minus strand

Genomic View for NOVA1 Gene

Genes around NOVA1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NOVA1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NOVA1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NOVA1 Gene

Proteins for NOVA1 Gene

  • Protein details for NOVA1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    RNA-binding protein Nova-1
    Protein Accession:
    Secondary Accessions:
    • A8K0S4
    • A8K4Q7
    • D3DS81
    • D3DS82
    • Q6B004

    Protein attributes for NOVA1 Gene

    510 amino acids
    Molecular mass:
    52056 Da
    Quaternary structure:
    • Interacts with PTBP2; the interaction is direct.

    Three dimensional structures from OCA and Proteopedia for NOVA1 Gene

    Alternative splice isoforms for NOVA1 Gene


neXtProt entry for NOVA1 Gene

Post-translational modifications for NOVA1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for NOVA1 Gene

Domains & Families for NOVA1 Gene

Gene Families for NOVA1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for NOVA1 Gene

Suggested Antigen Peptide Sequences for NOVA1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with NOVA1: view

No data available for UniProtKB/Swiss-Prot for NOVA1 Gene

Function for NOVA1 Gene

Molecular function for NOVA1 Gene

UniProtKB/Swiss-Prot Function:
May regulate RNA splicing or metabolism in a specific subset of developing neurons.
GENATLAS Biochemistry:
neuro-oncological ventral antigen 1 identified using antisera from patients with breast,and with a paraneoplastic neurologic disorder cancer,involving subcortical motor system characterized by paraneoplastic opsoclonus myoclonus ataxia

Phenotypes From GWAS Catalog for NOVA1 Gene

Gene Ontology (GO) - Molecular Function for NOVA1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding IEA,HDA 22681889
GO:0003729 mRNA binding IEA --
genes like me logo Genes that share ontologies with NOVA1: view
genes like me logo Genes that share phenotypes with NOVA1: view

Animal Models for NOVA1 Gene

MGI Knock Outs for NOVA1:

Animal Model Products

Clone Products

  • Addgene plasmids for NOVA1

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for NOVA1 Gene

Localization for NOVA1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NOVA1 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 NOVA1 gene
Compartment Confidence
nucleus 5
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoli (3)
  • Nucleus (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for NOVA1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005730 nucleolus IDA --
GO:0043231 intracellular membrane-bounded organelle IDA --
genes like me logo Genes that share ontologies with NOVA1: view

Pathways & Interactions for NOVA1 Gene

SuperPathways for NOVA1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for NOVA1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome IEA --
GO:0006396 RNA processing TAS 8398153
GO:0007268 chemical synaptic transmission TAS 8558240
GO:0007626 locomotory behavior TAS 8558240
GO:0008380 RNA splicing TAS 8398153
genes like me logo Genes that share ontologies with NOVA1: view

No data available for Pathways by source and SIGNOR curated interactions for NOVA1 Gene

Drugs & Compounds for NOVA1 Gene

No Compound Related Data Available

Transcripts for NOVA1 Gene

Unigene Clusters for NOVA1 Gene

Neuro-oncological ventral antigen 1:
Representative Sequences:

Clone Products

  • Addgene plasmids for NOVA1

Alternative Splicing Database (ASD) splice patterns (SP) for NOVA1 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4a · 4b ^ 5a · 5b ^ 6 ^ 7 ^ 8a · 8b ^ 9 ^ 10 ^ 11 ^ 12a · 12b · 12c
SP1: - - - - - - -
SP2: - - - - -
SP3: - - - - -
SP4: - - - - -
SP5: - - -
SP6: -
SP7: - -

Relevant External Links for NOVA1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for NOVA1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for NOVA1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for NOVA1 Gene

This gene is overexpressed in Brain - Cerebellar Hemisphere (x5.6) and Brain - Cerebellum (x4.1).

Protein differential expression in normal tissues from HIPED for NOVA1 Gene

This gene is overexpressed in Fetal Brain (43.1) and Frontal cortex (21.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for NOVA1 Gene

Protein tissue co-expression partners for NOVA1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of NOVA1 Gene:


SOURCE GeneReport for Unigene cluster for NOVA1 Gene:


mRNA Expression by UniProt/SwissProt for NOVA1 Gene:

Tissue specificity: Brain.

Evidence on tissue expression from TISSUES for NOVA1 Gene

  • Nervous system(4.8)
genes like me logo Genes that share expression patterns with NOVA1: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for NOVA1 Gene

Orthologs for NOVA1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for NOVA1 Gene

Organism Taxonomy Gene Similarity Type Details
(Canis familiaris)
Mammalia NOVA1 34
  • 100 (a)
LOC490632 33
  • 98.76 (n)
(Bos Taurus)
Mammalia NOVA1 34
  • 100 (a)
(Pan troglodytes)
Mammalia NOVA1 34 33
  • 99.79 (n)
(Ornithorhynchus anatinus)
Mammalia NOVA1 34
  • 99 (a)
(Mus musculus)
Mammalia Nova1 16 34 33
  • 96.55 (n)
(Rattus norvegicus)
Mammalia Nova1 33
  • 96.13 (n)
(Monodelphis domestica)
Mammalia NOVA1 34
  • 96 (a)
(Gallus gallus)
Aves NOVA1 34 33
  • 95.38 (n)
(Anolis carolinensis)
Reptilia NOVA1 34
  • 99 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia nova1 33
  • 80.19 (n)
African clawed frog
(Xenopus laevis)
Amphibia MGC53786 33
(Danio rerio)
Actinopterygii nova2 34 33
  • 70.67 (n)
fruit fly
(Drosophila melanogaster)
Insecta ps 34 35
  • 29 (a)
(Caenorhabditis elegans)
Secernentea Y59A8B.10 34
  • 24 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes PBP2 34
  • 21 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons BTR1L 33
  • 49.01 (n)
(Oryza sativa)
Liliopsida Os02g0822300 33
  • 51.78 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 44 (a)
Species where no ortholog for NOVA1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • 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)
  • 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 blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for NOVA1 Gene

Gene Tree for NOVA1 (if available)
Gene Tree for NOVA1 (if available)
Evolutionary constrained regions (ECRs) for NOVA1: view image

Paralogs for NOVA1 Gene

Paralogs for NOVA1 Gene

(13) SIMAP similar genes for NOVA1 Gene using alignment to 10 proteins:

  • B7Z770_HUMAN
  • F8VW64_HUMAN
  • F8W659_HUMAN
  • I3L2B5_HUMAN
genes like me logo Genes that share paralogs with NOVA1: view

Variants for NOVA1 Gene

Sequence variations from dbSNP and Humsavar for NOVA1 Gene

SNP ID Clin Chr 14 pos Variation AA Info Type
rs1000042839 -- 26,590,035(-) A/C genic_upstream_transcript_variant, intron_variant
rs1000053150 -- 26,573,369(-) A/G genic_upstream_transcript_variant, intron_variant
rs1000057635 -- 26,596,625(-) G/T 5_prime_UTR_variant, genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs1000071489 -- 26,459,144(-) T/C genic_downstream_transcript_variant, intron_variant
rs1000086864 -- 26,545,546(-) T/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for NOVA1 Gene

Variant ID Type Subtype PubMed ID
esv3306654 CNV mobile element insertion 20981092
esv3308915 CNV mobile element insertion 20981092
esv3364490 CNV insertion 20981092
esv3426721 CNV insertion 20981092
esv3633850 CNV gain 21293372
esv3633851 CNV loss 21293372
nsv1052199 CNV loss 25217958
nsv564106 CNV loss 21841781
nsv564107 CNV loss 21841781
nsv85659 CNV deletion 16902084
nsv952820 CNV deletion 24416366

Variation tolerance for NOVA1 Gene

Residual Variation Intolerance Score: 9.88% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.70; 46.34% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for NOVA1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NOVA1 Gene

Disorders for NOVA1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for NOVA1 Gene - From: DISEASES

Disorder Aliases PubMed IDs
partial fetal alcohol syndrome
- elite association - COSMIC cancer census association via MalaCards
Search NOVA1 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for NOVA1

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with NOVA1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for NOVA1 Gene

Publications for NOVA1 Gene

  1. Nova, the paraneoplastic Ri antigen, is homologous to an RNA-binding protein and is specifically expressed in the developing motor system. (PMID: 8398153) Buckanovich RJ … Darnell RB (Neuron 1993) 3 4 22 58
  2. Genetic variants associated with cardiac structure and function: a meta-analysis and replication of genome-wide association data. (PMID: 19584346) Vasan RS … Blankenberg S (JAMA 2009) 3 44 58
  3. Genome-wide association study of antipsychotic-induced parkinsonism severity among schizophrenia patients. (PMID: 19680635) Alkelai A … Lerer B (Psychopharmacology 2009) 3 44 58
  4. Post-transcriptional regulation of neuro-oncological ventral antigen 1 by the neuronal RNA-binding proteins ELAV. (PMID: 18218628) Ratti A … Silani V (The Journal of biological chemistry 2008) 3 22 58
  5. 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) 3 4 58

Products for NOVA1 Gene

Sources for NOVA1 Gene

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