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    NOVA1 NOVA alternative splicing regulator 1 [ Homo sapiens (human) ]

    Gene ID: 4857, updated on 9-Dec-2024

    Summary

    Official Symbol
    NOVA1provided by HGNC
    Official Full Name
    NOVA alternative splicing regulator 1provided by HGNC
    Primary source
    HGNC:HGNC:7886
    See related
    Ensembl:ENSG00000139910 MIM:602157; AllianceGenome:HGNC:7886
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    Nova-1
    Summary
    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]
    Expression
    Biased expression in brain (RPKM 10.5), fat (RPKM 4.3) and 12 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See NOVA1 in Genome Data Viewer
    Location:
    14q12
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (26443090..26598033, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (20640973..20795930, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (26912296..27067239, complement)

    Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene cytochrome b5 type A pseudogene 5 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:26730497-26731448 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr14:26750237-26751436 Neighboring gene uncharacterized LOC105370418 Neighboring gene NANOG hESC enhancer GRCh37_chr14:26863472-26864165 Neighboring gene NOVA1 divergent transcript Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:27147383-27148128 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr14:27260120-27260628 Neighboring gene long intergenic non-protein coding RNA 2294 Neighboring gene long intergenic non-protein coding RNA 2293

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    Genome-wide association studies and heritability estimates of body mass index related phenotypes in bangladeshi adults.
    EBI GWAS Catalog
    GWAS identifies four novel eosinophilic esophagitis loci.
    EBI GWAS Catalog

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables mRNA 3'-UTR binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables mRNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables sequence-specific mRNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables sequence-specific mRNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Process Evidence Code Pubs
    involved_in RNA processing TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in RNA splicing TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in negative regulation of cold-induced thermogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    involved_in nervous system development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of alternative mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of alternative mRNA splicing, via spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in intracellular membrane-bounded organelle IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    RNA-binding protein Nova-1
    Names
    neuro-oncological ventral antigen 1
    onconeural ventral antigen 1
    paraneoplastic Ri antigen
    ventral neuron-specific protein 1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001366390.2NP_001353319.1  RNA-binding protein Nova-1 isoform 4

      Status: REVIEWED

      Source sequence(s)
      AL079343, AL132716
      Conserved Domains (2) summary
      cd00105
      Location:277342
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:2792
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    2. NM_001366391.2NP_001353320.1  RNA-binding protein Nova-1 isoform 5

      Status: REVIEWED

      Source sequence(s)
      AL079343, AL132716
      UniProtKB/TrEMBL
      B7Z770
      Conserved Domains (2) summary
      cd00105
      Location:301366
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:51116
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    3. NM_001366392.2NP_001353321.1  RNA-binding protein Nova-1 isoform 6

      Status: REVIEWED

      Source sequence(s)
      AL079343, AL132716
      UniProtKB/TrEMBL
      A8K603
      Conserved Domains (2) summary
      cd00105
      Location:422487
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:172237
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    4. NM_001366393.2NP_001353322.1  RNA-binding protein Nova-1 isoform 7

      Status: REVIEWED

      Source sequence(s)
      AL079343, AL132716
      UniProtKB/TrEMBL
      A8K603
      Conserved Domains (2) summary
      cd00105
      Location:386451
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:136201
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    5. NM_001366394.2NP_001353323.1  RNA-binding protein Nova-1 isoform 8

      Status: REVIEWED

      Source sequence(s)
      AL079343, AL132716
      UniProtKB/TrEMBL
      A8K603
      Conserved Domains (2) summary
      cd00105
      Location:362427
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:112177
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    6. NM_001366395.2NP_001353324.1  RNA-binding protein Nova-1 isoform 5

      Status: REVIEWED

      Source sequence(s)
      AL079343, AL132716
      UniProtKB/TrEMBL
      B7Z770
      Conserved Domains (2) summary
      cd00105
      Location:301366
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:51116
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    7. NM_001366396.2NP_001353325.1  RNA-binding protein Nova-1 isoform 5

      Status: REVIEWED

      Source sequence(s)
      AL079343, AL132716
      UniProtKB/TrEMBL
      B7Z770
      Conserved Domains (2) summary
      cd00105
      Location:301366
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:51116
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    8. NM_001366397.2NP_001353326.1  RNA-binding protein Nova-1 isoform 4

      Status: REVIEWED

      Source sequence(s)
      AL079343, AL132716
      Conserved Domains (2) summary
      cd00105
      Location:277342
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:2792
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    9. NM_001366398.2NP_001353327.1  RNA-binding protein Nova-1 isoform 5

      Status: REVIEWED

      Source sequence(s)
      AL132716
      UniProtKB/TrEMBL
      B7Z770
      Conserved Domains (2) summary
      cd00105
      Location:301366
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:51116
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    10. NM_002515.3NP_002506.2  RNA-binding protein Nova-1 isoform 1

      See identical proteins and their annotated locations for NP_002506.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AI569678, AL079343, AL132716, BE762927, BX431656, CN409914, R60636, U04840
      Consensus CDS
      CCDS32061.1
      UniProtKB/Swiss-Prot
      A8K0S4, A8K4Q7, D3DS81, D3DS82, P51513, Q6B004
      UniProtKB/TrEMBL
      A8K603
      Related
      ENSP00000438875.2, ENST00000539517.7
      Conserved Domains (2) summary
      cd00105
      Location:423488
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:173238
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    11. NM_006489.3NP_006480.2  RNA-binding protein Nova-1 isoform 2

      See identical proteins and their annotated locations for NP_006480.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 3' coding region, compared to variant 1. The resulting protein (isoform 2) is shorter, compared to isoform 1.
      Source sequence(s)
      AI569678, AL079343, AL132716, BE762927, BX431656, CN409914, R60636, U04840
      Consensus CDS
      CCDS32060.1
      UniProtKB/TrEMBL
      A8K603
      Related
      ENSP00000447391.1, ENST00000465357.6
      Conserved Domains (2) summary
      cd00105
      Location:399464
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:149214
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    12. NM_006491.3NP_006482.1  RNA-binding protein Nova-1 isoform 3

      See identical proteins and their annotated locations for NP_006482.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an alternate in-frame exon in the 3' coding region, and differs in the 3' UTR, compared to variant 1. The resulting protein (isoform 3) is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AI569678, AL079343, AL132716, BE644739, CN409914, U04840
      Consensus CDS
      CCDS9635.1
      UniProtKB/TrEMBL
      I3L2B5
      Related
      ENSP00000342387.5, ENST00000344429.9
      Conserved Domains (1) summary
      cd22435
      Location:49121
      KH-I_NOVA_rpt1; first type I K homology (KH) RNA-binding domain found in the family of neuro-oncological ventral antigen (Nova)

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000014.9 Reference GRCh38.p14 Primary Assembly

      Range
      26443090..26598033 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017021345.2XP_016876834.1  RNA-binding protein Nova-1 isoform X1

      UniProtKB/TrEMBL
      B7Z770
      Conserved Domains (2) summary
      cd00105
      Location:301366
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:51116
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060938.1 Alternate T2T-CHM13v2.0

      Range
      20640973..20795930 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054376146.1XP_054232121.1  RNA-binding protein Nova-1 isoform X1

      UniProtKB/TrEMBL
      B7Z770