Nova1 NOVA alternative splicing regulator 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Nova1provided by RGD
Official Full Name: NOVA alternative splicing regulator 1provided by RGD
Primary source: RGD:621345
See related: Ensembl:ENSRNOG00000031440 AllianceGenome:RGD:621345
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Nova-1
Summary: Predicted to enable mRNA 3'-UTR binding activity and sequence-specific mRNA binding activity. Involved in regulation of mRNA processing and spinal cord development. Predicted to be located in nucleolus and nucleoplasm. Predicted to be active in cytoplasm and nucleus. Orthologous to human NOVA1 (NOVA alternative splicing regulator 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 72.2), Lung (RPKM 24.3) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 6q21

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	6	NC_086024.1 (69506983..69632437, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	6	NC_051341.1 (63780105..63905567, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	6	NC_005105.4 (66960126..67085836, complement)

Chromosome 6 - NC_086024.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Circular RNA UVRAG Mediated by Alternative Splicing Factor NOVA1 Regulates Adhesion and Migration of Vascular Smooth Muscle Cells.
Title: Circular RNA UVRAG Mediated by Alternative Splicing Factor NOVA1 Regulates Adhesion and Migration of Vascular Smooth Muscle Cells.
Nova1 mediates resistance of rat pheochromocytoma cells to hypoxia-induced apoptosis via the Bax/Bcl-2/caspase-3 pathway.
Title: Nova1 mediates resistance of rat pheochromocytoma cells to hypoxia-induced apoptosis via the Bax/Bcl-2/caspase-3 pathway.
Nova1 and Ncoa3 stimulate miRNA function by different mechanisms that converge on Argonaute (Ago) proteins, core components of the miRNA-induced silencing complex (miRISC).
Title: A large-scale functional screen identifies Nova1 and Ncoa3 as regulators of neuronal miRNA function.
The data indicate that Nova1 has a major role in beta cell function, controlling the splicing and expression of key genes involved in transcription, insulin release and apoptosis.
Title: Nova1 is a master regulator of alternative splicing in pancreatic beta cells.
Nova1 might mediate neuronal responsiveness, and its expression might positively correlate with neural repair after ischemia-reperfusion insults in the rat brain.
Title: Dynamic expression pattern of neuro-oncological ventral antigen 1 (Nova1) in the rat brain after focal cerebral ischemia/reperfusion insults.
Role of Nova-1 in regulating alpha2N, a novel glycine receptor splice variant, in developing spinal cord neurons.
Title: Role of Nova-1 in regulating alpha2N, a novel glycine receptor splice variant, in developing spinal cord neurons.

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General gene information

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Markers

NOVA1__6065 (e-PCR)
- UniSTS:463641

Nova1 (e-PCR), detects polymorphism
- UniSTS:479181

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA binding	ISO Inferred from Sequence Orthology more info
enables RNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables mRNA 3'-UTR binding	IEA Inferred from Electronic Annotation more info
enables mRNA 3'-UTR binding	ISO Inferred from Sequence Orthology more info
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables mRNA binding	ISO Inferred from Sequence Orthology more info
enables mRNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables sequence-specific mRNA binding	IEA Inferred from Electronic Annotation more info
enables sequence-specific mRNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific mRNA binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in mRNA splicing, via spliceosome	IBA Inferred from Biological aspect of Ancestor more info
involved_in mRNA splicing, via spliceosome	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mRNA splicing, via spliceosome	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cold-induced thermogenesis	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cold-induced thermogenesis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cold-induced thermogenesis	ISS Inferred from Sequence or Structural Similarity more info	PubMed
acts_upstream_of_or_within regulation of RNA metabolic process	ISO Inferred from Sequence Orthology 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	IEA Inferred from Electronic Annotation more info
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 mRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in spinal cord development	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology 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
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: RNA-binding protein Nova-1

Names: neuro-oncological ventral antigen 1

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_001100541.2 → NP_001094011.2 RNA-binding protein Nova-1 isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000006

UniProtKB/TrEMBL

A6HBF5

Related

ENSRNOP00000069458.1, ENSRNOT00000083277.2
NM_001414916.1 → NP_001401845.1 RNA-binding protein Nova-1 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000006

UniProtKB/TrEMBL

A0A8I6G9C1, A6HBF6

Related

ENSRNOP00000082322.1, ENSRNOT00000103119.1
NM_001414917.1 → NP_001401846.1 RNA-binding protein Nova-1 isoform 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000006

UniProtKB/TrEMBL

A6HBF7

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086024.1 Reference GRCr8

Range

69506983..69632437 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039111964.2 → XP_038967892.1 RNA-binding protein Nova-1 isoform X3

UniProtKB/TrEMBL

A0A0G2JVE8

Conserved Domains (3) summary

cd09031
Location:361 → 431

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:12 → 84

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:111 → 180

KH-I_NOVA_rpt2; second type I K homology (KH) RNA-binding domain found in the family of neuro-oncological ventral antigen (Nova)
XM_006240070.5 → XP_006240132.1 RNA-binding protein Nova-1 isoform X1

See identical proteins and their annotated locations for XP_006240132.1

UniProtKB/TrEMBL

A0A0G2JVE8, D4AAF8

Related

ENSRNOP00000045624.4

Conserved Domains (1) summary

cl00098
Location:12 → 84

KH-I; K homology (KH) RNA-binding domain, type I
XM_063261663.1 → XP_063117733.1 RNA-binding protein Nova-1 isoform X4
XM_039111963.2 → XP_038967891.1 RNA-binding protein Nova-1 isoform X2

UniProtKB/TrEMBL

A0A0G2JVE8

Conserved Domains (3) summary

cd09031
Location:381 → 451

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:8 → 80

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)
XM_039111966.2 → XP_038967894.1 RNA-binding protein Nova-1 isoform X6

UniProtKB/TrEMBL

A6HBF7

Conserved Domains (2) summary

cd09031
Location:300 → 370

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

cd22436
Location:50 → 119

KH-I_NOVA_rpt2; second type I K homology (KH) RNA-binding domain found in the family of neuro-oncological ventral antigen (Nova)
XM_039111967.2 → XP_038967895.1 RNA-binding protein Nova-1 isoform X6

UniProtKB/TrEMBL

A6HBF7

Conserved Domains (2) summary

cd09031
Location:300 → 370

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

cd22436
Location:50 → 119

KH-I_NOVA_rpt2; second type I K homology (KH) RNA-binding domain found in the family of neuro-oncological ventral antigen (Nova)
XM_063261664.1 → XP_063117734.1 RNA-binding protein Nova-1 isoform X5
XM_063261665.1 → XP_063117735.1 RNA-binding protein Nova-1 isoform X7

UniProtKB/TrEMBL

A6HBF8