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Aliases for NOVA2 Gene

Aliases for NOVA2 Gene

  • NOVA Alternative Splicing Regulator 2 2 3 5
  • Neuro-Oncological Ventral Antigen 2 2 3 4
  • Astrocytic NOVA1-Like RNA-Binding Protein 3 4
  • Neuro-Oncological Ventral Antigen 3 2 3
  • NOVA3 3 4
  • ANOVA 3 4
  • RNA-Binding Protein Nova-2 3

External Ids for NOVA2 Gene

Previous HGNC Symbols for NOVA2 Gene

  • NOVA3

Previous GeneCards Identifiers for NOVA2 Gene

  • GC19M047086
  • GC19M046833
  • GC19M051118
  • GC19M051134
  • GC19M046442
  • GC19M042871

Summaries for NOVA2 Gene

GeneCards Summary for NOVA2 Gene

NOVA2 (NOVA Alternative Splicing Regulator 2) is a Protein Coding gene. GO annotations related to this gene include nucleic acid binding and RNA binding. An important paralog of this gene is NOVA1.

UniProtKB/Swiss-Prot for NOVA2 Gene

  • May regulate RNA splicing or metabolism in a specific subset of developing neurons (By similarity). Binds single strand RNA.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NOVA2 Gene

Genomics for NOVA2 Gene

Regulatory Elements for NOVA2 Gene

Enhancers for NOVA2 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
GH19F046241 0.2 ENCODE 10.7 -268.3 -268312 1.5 HDAC1 ZNF76 SIN3A YY1 ZNF335 ZNF121 GLIS2 ZNF766 EGR2 SP3 CCDC61 ENSG00000269148 FBXO46 ZC3H4 SLC1A5 NOVA2 PRKD2 LOC93429 IGFL3 ENSG00000277748
GH19F046240 0.4 ENCODE 10.7 -267.4 -267373 0.2 SCRT1 HLF ZNF664 ZNF692 SCRT2 PRDM10 PRDM1 ZBTB17 SP7 CCDC61 NOVA2 ENSG00000277748 ENSG00000269745
GH19F046238 0.2 ENCODE 10.7 -265.8 -265794 1.3 RNF2 HLF PRDM10 ZBTB33 PRDM1 CCDC61 NOVA2 IGFL2-AS1 ENSG00000269745 ENSG00000277748
GH19F046262 1.1 Ensembl ENCODE 10.2 -289.7 -289655 0.8 HDGF FEZF1 ELK1 ZNF143 FOS ZNF263 SP3 YY2 JUNB TSHZ1 CCDC61 CCDC9 FBXO46 ZC3H4 ENSG00000269148 SLC1A5 HIF3A IGFL4 ENSG00000268810 PGLYRP1
GH19F046265 0.4 ENCODE 10.2 -291.9 -291893 0.2 CTCF MAX RAD21 SCRT2 ZNF143 SMC3 ZBTB20 SCRT1 ZNF654 TRIM22 HIF3A IGFL4 MIR769 PGLYRP1 CCDC61 NOVA2 IGFL1P2
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around NOVA2 on UCSC Golden Path with GeneCards custom track

Promoters for NOVA2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001818060 346 2400 ZNF76 KLF17 GLI4 GLIS2 ZNF366 SCRT2 ZNF416 ZNF391 CREM EGR2

Genomic Location for NOVA2 Gene

Chromosome:
19
Start:
45,933,734 bp from pter
End:
45,973,546 bp from pter
Size:
39,813 bases
Orientation:
Minus strand

Genomic View for NOVA2 Gene

Genes around NOVA2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NOVA2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NOVA2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NOVA2 Gene

Proteins for NOVA2 Gene

  • Protein details for NOVA2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UNW9-NOVA2_HUMAN
    Recommended name:
    RNA-binding protein Nova-2
    Protein Accession:
    Q9UNW9
    Secondary Accessions:
    • O43267
    • Q9UEA1

    Protein attributes for NOVA2 Gene

    Size:
    492 amino acids
    Molecular mass:
    49009 Da
    Quaternary structure:
    • Interacts with PTBP2; the interaction is direct.
    SequenceCaution:
    • Sequence=AAB88661.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for NOVA2 Gene

neXtProt entry for NOVA2 Gene

Post-translational modifications for NOVA2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for NOVA2 Gene

No data available for DME Specific Peptides for NOVA2 Gene

Domains & Families for NOVA2 Gene

Protein Domains for NOVA2 Gene

Suggested Antigen Peptide Sequences for NOVA2 Gene

Graphical View of Domain Structure for InterPro Entry

Q9UNW9

UniProtKB/Swiss-Prot:

NOVA2_HUMAN :
  • The third KH domain (KH3) recognizes specifically 5-UCAY-3.
Domain:
  • The third KH domain (KH3) recognizes specifically 5-UCAY-3.
  • Contains 3 KH domains.
genes like me logo Genes that share domains with NOVA2: view

No data available for Gene Families for NOVA2 Gene

Function for NOVA2 Gene

Molecular function for NOVA2 Gene

GENATLAS Biochemistry:
neuro-oncological ventral antigen 2
UniProtKB/Swiss-Prot Function:
May regulate RNA splicing or metabolism in a specific subset of developing neurons (By similarity). Binds single strand RNA.

Gene Ontology (GO) - Molecular Function for NOVA2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding IEA,NAS 10735272
GO:0044822 poly(A) RNA binding IDA 22681889
genes like me logo Genes that share ontologies with NOVA2: view

Phenotypes for NOVA2 Gene

genes like me logo Genes that share phenotypes with NOVA2: view

Animal Models for NOVA2 Gene

MGI Knock Outs for NOVA2:

Animal Model Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for NOVA2 Gene

Localization for NOVA2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NOVA2 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for NOVA2 Gene COMPARTMENTS Subcellular localization image for NOVA2 gene
Compartment Confidence
nucleus 4
cytosol 2
peroxisome 1

Gene Ontology (GO) - Cellular Components for NOVA2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with NOVA2: view

Pathways & Interactions for NOVA2 Gene

SuperPathways for NOVA2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for NOVA2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome IEA --
GO:0051252 regulation of RNA metabolic process IEA --
genes like me logo Genes that share ontologies with NOVA2: view

No data available for Pathways by source and SIGNOR curated interactions for NOVA2 Gene

Transcripts for NOVA2 Gene

Unigene Clusters for NOVA2 Gene

Neuro-oncological ventral antigen 2:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for NOVA2 Gene

No ASD Table

Relevant External Links for NOVA2 Gene

GeneLoc Exon Structure for
NOVA2
ECgene alternative splicing isoforms for
NOVA2

Expression for NOVA2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for NOVA2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for NOVA2 Gene

This gene is overexpressed in Brain - Cortex (x4.3).

Protein differential expression in normal tissues from HIPED for NOVA2 Gene

This gene is overexpressed in Fetal Brain (17.5), Pancreas (10.0), Fetal gut (7.7), Plasma (7.6), and Peripheral blood mononuclear cells (6.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for NOVA2 Gene



Protein tissue co-expression partners for NOVA2 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of NOVA2 Gene:

NOVA2

SOURCE GeneReport for Unigene cluster for NOVA2 Gene:

Hs.375439

mRNA Expression by UniProt/SwissProt for NOVA2 Gene:

Q9UNW9-NOVA2_HUMAN
Tissue specificity: Brain. Expression restricted to astrocytes.
genes like me logo Genes that share expression patterns with NOVA2: view

Primer Products

Orthologs for NOVA2 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for NOVA2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NOVA2 35
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia NOVA2 34 35
  • 93.56 (n)
dog
(Canis familiaris)
Mammalia NOVA2 35
  • 93 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Nova2 34 16 35
  • 90.99 (n)
rat
(Rattus norvegicus)
Mammalia Nova2 34
  • 89.05 (n)
oppossum
(Monodelphis domestica)
Mammalia NOVA2 35
  • 89 (a)
OneToOne
chicken
(Gallus gallus)
Aves -- 35
  • 24 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 80 (a)
ManyToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia nova2 34
  • 68.1 (n)
zebrafish
(Danio rerio)
Actinopterygii nova1 35
  • 77 (a)
ManyToMany
Dr.6502 34
fruit fly
(Drosophila melanogaster)
Insecta ps 36 35
  • 50 (a)
worm
(Caenorhabditis elegans)
Secernentea Y59A8B.10 35
  • 24 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes PBP2 35
  • 22 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 43 (a)
OneToMany
Species where no ortholog for NOVA2 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)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • 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)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for NOVA2 Gene

ENSEMBL:
Gene Tree for NOVA2 (if available)
TreeFam:
Gene Tree for NOVA2 (if available)

Paralogs for NOVA2 Gene

Paralogs for NOVA2 Gene

(1) SIMAP similar genes for NOVA2 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with NOVA2: view

Variants for NOVA2 Gene

Sequence variations from dbSNP and Humsavar for NOVA2 Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs10403494 -- 45,942,222(+) aattt(C/G)actat intron-variant
rs10406274 -- 45,968,896(+) gctca(C/T)gcctg intron-variant
rs10407600 -- 45,969,505(+) cctgt(C/T)tcaga intron-variant
rs10415067 -- 45,948,669(+) CCCAT(C/G)GATGG intron-variant
rs10421565 -- 45,970,965(+) TCCCC(A/G)CTGTG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for NOVA2 Gene

Variant ID Type Subtype PubMed ID
esv2674835 CNV deletion 23128226
esv3644515 CNV loss 21293372
nsv1071540 CNV deletion 25765185
nsv1114017 CNV deletion 24896259
nsv1143918 CNV deletion 24896259
nsv953588 CNV deletion 24416366

Variation tolerance for NOVA2 Gene

Residual Variation Intolerance Score: 28.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.24; 5.36% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for NOVA2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NOVA2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NOVA2 Gene

Disorders for NOVA2 Gene

Relevant External Links for NOVA2

Genetic Association Database (GAD)
NOVA2
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
NOVA2

No disorders were found for NOVA2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NOVA2 Gene

Publications for NOVA2 Gene

  1. Crystal structures of Nova-1 and Nova-2 K-homology RNA-binding domains. (PMID: 10368286) Lewis H.A. … Burley S.K. (Structure 1999) 2 3 4 64
  2. The neuronal RNA-binding protein Nova-2 is implicated as the autoantigen targeted in POMA patients with dementia. (PMID: 9789075) Yang Y.Y. … Darnell R.B. (Proc. Natl. Acad. Sci. U.S.A. 1998) 3 4 22 64
  3. ANOVA, a putative astrocytic RNA binding protein gene that maps to chromosome 19q13.3. (PMID: 10735272) Ueki K. … Louis D.N. (Neurogenetics 1997) 3 4 22 64
  4. The DNA sequence and biology of human chromosome 19. (PMID: 15057824) Grimwood J. … Lucas S.M. (Nature 2004) 3 4 64
  5. Sequence-specific RNA binding by a Nova KH domain: implications for paraneoplastic disease and the fragile X syndrome. (PMID: 10676814) Lewis H.A. … Burley S.K. (Cell 2000) 3 4 64

Products for NOVA2 Gene

Sources for NOVA2 Gene

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