Nova2 NOVA alternative splicing regulator 2 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Nova2provided by MGI
Official Full Name: NOVA alternative splicing regulator 2provided by MGI
Primary source: MGI:MGI:104296
See related: Ensembl:ENSMUSG00000030411 AllianceGenome:MGI:104296
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Gm1424
Summary: Enables mRNA binding activity. Involved in several processes, including negative regulation of cold-induced thermogenesis; regulation of alternative mRNA splicing, via spliceosome; and regulation of axon guidance. Acts upstream of or within regulation of RNA metabolic process. Predicted to be active in cytoplasm and nucleus. Is expressed in several structures, including central nervous system; olfactory epithelium; peripheral nervous system ganglion; retina; and trigeminal nerve. Orthologous to human NOVA2 (NOVA alternative splicing regulator 2). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in whole brain E14.5 (RPKM 11.2), CNS E14 (RPKM 9.2) and 13 other tissues See more
Orthologs: human all
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Genomic context

Location:: 7 A3; 7 9.41 cM

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	7	NC_000073.7 (18659319..18699244)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	7	NC_000073.6 (18925888..18965319)

Chromosome 7 - NC_000073.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

NOVA2 regulates neural circRNA biogenesis.
Title: NOVA2 regulates neural circRNA biogenesis.
NOVA2 controls unique RNA splicing programs in inhibitory and excitatory neurons during cortical development.
Title: Differential NOVA2-Mediated Splicing in Excitatory and Inhibitory Neurons Regulates Cortical Development and Cerebellar Function.
Together, these results demonstrate that the production of DCC splice variants controlled by NOVA has a crucial function during many stages of commissural neuron development.
Title: NOVA regulates Dcc alternative splicing during neuronal migration and axon guidance in the spinal cord.
NOVA2 uniquely regulates alternative splicing of a coordinate set of transcripts encoding key components in cortical, brainstem and spinal axon guidance/outgrowth pathways during neural differentiation, with severe functional consequences in vivo.
Title: NOVA2-mediated RNA regulation is required for axonal pathfinding during development.
Phenotypic analysis of the NOVA-deficient mice demonstrated increased adipose tissue thermogenesis and improved glycemia.
Title: An alternative splicing program promotes adipose tissue thermogenesis.
These results reveal that Nova2 functions as an AS regulator in angiogenesis and is a novel member of the angioneurins family.
Title: The alternative splicing factor Nova2 regulates vascular development and lumen formation.
integrative network revealed combinatorial regulation by Nova and the neuronal splicing factor Fox, interplay between phosphorylation and splicing, and potential links to neurologic disease
Title: Integrative modeling defines the Nova splicing-regulatory network and its combinatorial controls.
Nova2 regulates an RNA switch controlling the ability of Dab1 to mediate neuronal responsiveness to reelin signaling and neuronal migration, suggesting new links between splicing regulation, brain disease, and development.
Title: Nova2 regulates neuronal migration through an RNA switch in disabled-1 signaling.
Nova1/Nova2 double knockout mice are paralyzed and fail to cluster AChRs at the neuromuscular junction, and breeding them with transgenic mice constitutively expressing Z(+) agrin in motor neurons rescued AChR clustering
Title: Rescuing Z+ agrin splicing in Nova null mice restores synapse formation and unmasks a physiologic defect in motor neuron firing.
the neuron-specific splicing factor Nova revealed extremely reproducible RNA-binding maps in multiple mouse brains
Title: HITS-CLIP yields genome-wide insights into brain alternative RNA processing.

Submit: New GeneRIF Correction See all GeneRIFs (12)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (6) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

WI-22528 (e-PCR)
- UniSTS:22273

Nova2 (e-PCR), detects polymorphism
- UniSTS:479012

12.MMHAP27FRD9.seq (e-PCR)
- UniSTS:159600

D7Jcs7 (e-PCR), detects polymorphism
- UniSTS:461972

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables RNA binding	ISO Inferred from Sequence Orthology more info
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables mRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific mRNA binding	IEA Inferred from Electronic Annotation more info
enables sequence-specific mRNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in RNA splicing	IEA Inferred from Electronic Annotation more info
involved_in central nervous system neuron development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in mRNA splicing, via spliceosome	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of cold-induced thermogenesis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in neuron differentiation	ISO Inferred from Sequence Orthology more info
involved_in neuron differentiation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of RNA metabolic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of RNA metabolic process	ISO Inferred from Sequence Orthology more info
involved_in regulation of RNA metabolic process	ISS Inferred from Sequence or Structural Similarity 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	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of alternative mRNA splicing, via spliceosome	ISO Inferred from Sequence Orthology more info
involved_in regulation of alternative mRNA splicing, via spliceosome	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: RNA-binding protein Nova-2

Names: neuro-oncological ventral antigen 2

NCBI Reference Sequences (RefSeq)

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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)

NM_001029877.3 → NP_001025048.2 RNA-binding protein Nova-2

See identical proteins and their annotated locations for NP_001025048.2

Status: VALIDATED

Source sequence(s)

AC170864, BF455773, BF466030, CJ126741, CJ126972

Consensus CDS

CCDS20882.2

UniProtKB/Swiss-Prot

A0A1W2P872, D3YVV7

Related

ENSMUSP00000151939.2, ENSMUST00000220302.2

Conserved Domains (3) summary

cd09031
Location:409 → 477

KH-I_NOVA_rpt3; third type I K homology (KH) RNA-binding domain found in the family of neuro-oncological ventral antigen (Nova)

cd22435
Location:33 → 104

KH-I_NOVA_rpt1; first type I K homology (KH) RNA-binding domain found in the family of neuro-oncological ventral antigen (Nova)

cd22436
Location:131 → 200

KH-I_NOVA_rpt2; second type I K homology (KH) RNA-binding domain found in the family of neuro-oncological ventral antigen (Nova)

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000073.7 Reference GRCm39 C57BL/6J

Range

18659319..18699244

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036153207.1 → XP_036009100.1 RNA-binding protein Nova-2 isoform X1

Conserved Domains (2) summary

cd09031
Location:253 → 321

KH-I_NOVA_rpt3; third type I K homology (KH) RNA-binding domain found in the family of neuro-oncological ventral antigen (Nova)

cl00098
Location:1 → 44

KH-I; K homology (KH) RNA-binding domain, type I