Ncf1 neutrophil cytosolic factor 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Ncf1provided by RGD
Full Name: neutrophil cytosolic factor 1provided by RGD
Primary source: RGD:61307
See related: Ensembl:ENSRNOG00000001480 AllianceGenome:RGD:61307
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Ncf-1; p47phox
Summary: Enables superoxide-generating NADPH oxidase activator activity. Involved in several processes, including reactive oxygen species biosynthetic process; regulation of respiratory burst involved in inflammatory response; and respiratory burst. Located in several cellular components, including Golgi apparatus; neuronal cell body; and rough endoplasmic reticulum. Part of NADPH oxidase complex. Used to study rheumatoid arthritis. Human ortholog(s) of this gene implicated in Williams-Beuren syndrome; autosomal recessive chronic granulomatous disease cytochrome b-positive type I; and chronic granulomatous disease. Orthologous to several human genes including NCF1 (neutrophil cytosolic factor 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Heart (RPKM 326.4), Spleen (RPKM 228.0) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 12q12

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	12	NC_086030.1 (28121816..28131080)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	12	NC_051347.1 (22485382..22494647)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	12	NC_005111.4 (25497104..25506300)

Chromosome 12 - NC_086030.1 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?

Extracellular cyclophilin A induces cardiac hypertrophy via the ERK/p47phox pathway.
Title: Extracellular cyclophilin A induces cardiac hypertrophy via the ERK/p47phox pathway.
enhancing p47phox membrane translocation is a major mechanism whereby bupivacaine induced neurotoxicity and that pretreatment with VAS2870 or local p47phox gene knockdown attenuated bupivacaine-induced neuronal cell injury.
Title: Activation of p47phox as a Mechanism of Bupivacaine-Induced Burst Production of Reactive Oxygen Species and Neural Toxicity.
it is concluded that: (i) melatonin beneficial action against diabetic nephropathy involves attenuation of the excessive activity of Nox; and (ii) the mechanism of melatonin inhibitory effect on Nox is based on the mitigation of expression and membrane translocation of its regulatory subunits.
Title: Melatonin nephroprotective action in Zucker diabetic fatty rats involves its inhibitory effect on NADPH oxidase.
Exercise Training attenuates the increased expression of p47(phox) and p67(phox) in the hearts of diabetic rats which could be an underlying mechanism for improving intracardiac matrix and thus cardiac function and prevent cardiac remodeling in diabetic cardiomyopathy.
Title: Exercise Training Attenuates Upregulation of p47(phox) and p67(phox) in Hearts of Diabetic Rats.
NOX2 and p47phox-derived production of reactive oxygen species is involved in learning and memory impairments in 16-month-old female rats.
Title: NADPH oxidase-derived production of reactive oxygen species is involved in learning and memory impairments in 16-month-old female rats.
The levels of cytosolic p67Phox, p47Phox, and p40Phox were increased in membrane fractions following traumatic brain injury.
Title: A time course of NADPH-oxidase up-regulation and endothelial nitric oxide synthase activation in the hippocampus following neurotrauma.
translocation of p47(phox) from cytosol to membrane was suppressed markedly by ORG after I/R.
Title: Oregonin from the Bark of Alnus japonica restrained ischemia-reperfusion-induced mesentery oxidative stress by inhibiting NADPH oxidase activation.
Exposure to dopamine (DA) substantially increased levels of astrocytic NADPH oxidase subunits and induced p47(phox) phosphorylation.
Title: Elevated dopamine induces minimal hepatic encephalopathy by activation of astrocytic NADPH oxidase and astrocytic protein tyrosine nitration.
Nox2 and p47(phox) modulate compensatory growth of primary collateral arteries.
Title: Nox2 and p47(phox) modulate compensatory growth of primary collateral arteries.
OX1R positive cells and NAD(P)H oxidative subunit gp91phox or p47phox-immunoreactive (IR) cells were co-localized in rostral ventrolateral medulla.
Title: The effect of orexin-A on cardiac dysfunction mediated by NADPH oxidase-derived superoxide anion in ventrolateral medulla.

Submit: New GeneRIF Correction See all GeneRIFs (45)

General gene information

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Markers

RH138855 (e-PCR)
- UniSTS:220942

RH132543 (e-PCR)
- UniSTS:215826

Ncf1 (e-PCR), detects polymorphism
- UniSTS:228517

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables SH3 domain binding	ISO Inferred from Sequence Orthology more info
enables phosphatidylinositol binding	IEA Inferred from Electronic Annotation more info
enables phosphatidylinositol binding	ISO Inferred from Sequence Orthology more info
enables phosphatidylinositol-3,4-bisphosphate binding	ISO Inferred from Sequence Orthology more info
enables superoxide-generating NAD(P)H oxidase activity	ISO Inferred from Sequence Orthology more info
enables superoxide-generating NADPH oxidase activator activity	IBA Inferred from Biological aspect of Ancestor more info
enables superoxide-generating NADPH oxidase activator activity	IDA Inferred from Direct Assay more info	PubMed
enables superoxide-generating NADPH oxidase activator activity	IEA Inferred from Electronic Annotation more info
enables superoxide-generating NADPH oxidase activator activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cellular defense response	ISO Inferred from Sequence Orthology more info
involved_in cellular response to cadmium ion	ISO Inferred from Sequence Orthology more info
involved_in cellular response to glucose stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to reactive oxygen species	ISO Inferred from Sequence Orthology more info
involved_in cellular response to testosterone stimulus	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within defense response to Gram-positive bacterium	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within defense response to bacterium	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within defense response to fungus	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within epithelial cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within hydrogen peroxide biosynthetic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inflammatory response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within leukocyte mediated cytotoxicity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within leukotriene metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of smooth muscle contraction	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neutrophil-mediated killing of fungus	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neutrophil-mediated killing of gram-positive bacterium	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of JNK cascade	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of p38MAPK cascade	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISO Inferred from Sequence Orthology more info
involved_in protein targeting to membrane	ISO Inferred from Sequence Orthology more info
involved_in reactive oxygen species biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of respiratory burst involved in inflammatory response	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in respiratory burst	IBA Inferred from Biological aspect of Ancestor more info
involved_in respiratory burst	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within respiratory burst	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within respiratory burst involved in defense response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to bacterium	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to yeast	ISO Inferred from Sequence Orthology more info
acts_upstream_of smooth muscle contraction	ISO Inferred from Sequence Orthology more info
involved_in superoxide anion generation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within superoxide anion generation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within_positive_effect superoxide anion generation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of NADPH oxidase complex	IBA Inferred from Biological aspect of Ancestor more info
part_of NADPH oxidase complex	IDA Inferred from Direct Assay more info	PubMed
part_of NADPH oxidase complex	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic side of plasma membrane	ISO Inferred from Sequence Orthology more info
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: neutrophil cytosolic factor 1

Names: neutrophil cytosol factor 1; neutrophil cytosol factor 1-like; phagocyte oxidase 47 kDa

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_053734.2 → NP_446186.2 neutrophil cytosolic factor 1

See identical proteins and their annotated locations for NP_446186.2

Status: PROVISIONAL

Source sequence(s)

BC061810

UniProtKB/Swiss-Prot

F1M707

UniProtKB/TrEMBL

Q811Y3

Related

ENSRNOP00000002028.5, ENSRNOT00000002028.9

Conserved Domains (5) summary

cd06887
Location:6 → 123

PX_p47phox; The phosphoinositide binding Phox Homology domain of the p47phox subunit of NADPH oxidase

cd12021
Location:160 → 212

SH3_p47phox_1; First or N-terminal Src homology 3 domain of the p47phox subunit of NADPH oxidase, also called Neutrophil Cytosolic Factor 1

cd12022
Location:230 → 282

SH3_p47phox_2; Second or C-terminal Src homology 3 domain of the p47phox subunit of NADPH oxidase, also called Neutrophil Cytosolic Factor 1

pfam08944
Location:332 → 388

p47_phox_C; NADPH oxidase subunit p47Phox, C terminal domain

pfam16621
Location:282 → 331

NECFESHC; SH3 terminal domain of 2nd SH3 on Neutrophil cytosol factor 1

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_086030.1 Reference GRCr8

Range

28121816..28131080

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039089020.2 → XP_038944948.1 neutrophil cytosolic factor 1 isoform X1

UniProtKB/Swiss-Prot

F1M707

UniProtKB/TrEMBL

Q99M65

Conserved Domains (5) summary

cd06887
Location:6 → 123

PX_p47phox; The phosphoinositide binding Phox Homology domain of the p47phox subunit of NADPH oxidase

cd12022
Location:189 → 241

SH3_p47phox_2; Second or C-terminal Src homology 3 domain of the p47phox subunit of NADPH oxidase, also called Neutrophil Cytosolic Factor 1

pfam08944
Location:317 → 348

p47_phox_C; NADPH oxidase subunit p47Phox, C terminal domain

pfam16621
Location:241 → 290

NECFESHC; SH3 terminal domain of 2nd SH3 on Neutrophil cytosol factor 1

cl17036
Location:151 → 171

SH3; Src Homology 3 domain superfamily
XM_063270990.1 → XP_063127060.1 neutrophil cytosolic factor 1 isoform X2