Sod1 (superoxide dismutase 1) - Rat Genome Database

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Gene: Sod1 (superoxide dismutase 1) Ictidomys tridecemlineatus
Analyze
Symbol: Sod1
Name: superoxide dismutase 1
RGD ID: 12513085
Description: ENCODES a protein that exhibits copper ion binding (ortholog); enzyme binding (ortholog); protein phosphatase 2B binding (ortholog); INVOLVED IN action potential initiation (ortholog); apoptotic process (ortholog); auditory receptor cell stereocilium organization (ortholog); PARTICIPATES IN amyotrophic lateral sclerosis pathway; forkhead class A signaling pathway; hypertension pathway; ASSOCIATED WITH acute kidney failure (ortholog); alcohol use disorder (ortholog); Alcoholic Fatty Liver (ortholog); FOUND IN dense core granule (ortholog); extracellular region (ortholog); lysosome (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: superoxide dismutase 1, soluble; superoxide dismutase [Cu-Zn]
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497127,114,944 - 27,122,669 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493650010,345,154 - 10,352,867 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493650010,345,154 - 10,352,873 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
acute kidney failure  (ISO)
alcohol use disorder  (ISO)
Alcoholic Fatty Liver  (ISO)
Alcoholic Liver Diseases  (ISO)
Alzheimer's disease  (ISO)
amyotrophic lateral sclerosis  (ISO)
amyotrophic lateral sclerosis type 1  (ISO)
amyotrophic lateral sclerosis type 10  (ISO)
Animal Disease Models  (ISO)
Animal Mammary Neoplasms  (ISO)
Aortic Calcification  (ISO)
aortic disease  (ISO)
asphyxia neonatorum  (ISO)
asthma  (ISO)
atherosclerosis  (ISO)
atrial fibrillation  (ISO)
autosomal dominant intellectual developmental disorder 7  (ISO)
Behcet's disease  (ISO)
Brain Injuries  (ISO)
brain ischemia  (ISO)
cardiac arrest  (ISO)
cardiomyopathy  (ISO)
cataract  (ISO)
Chemical and Drug Induced Liver Injury  (ISO)
Choroidal Neovascularization  (ISO)
Chronic Hepatitis  (ISO)
chronic progressive external ophthalmoplegia  (ISO)
congenital diaphragmatic hernia  (ISO)
congestive heart failure  (ISO)
contact dermatitis  (ISO)
coronary artery disease  (ISO)
cutaneous leishmaniasis  (ISO)
cystitis  (ISO)
depressive disorder  (ISO)
developmental coordination disorder  (ISO)
diabetes mellitus  (ISO)
diabetic angiopathy  (ISO)
Diabetic Nephropathies  (ISO)
diabetic retinopathy  (ISO)
Disease Progression  (ISO)
Down syndrome  (ISO)
Drug-Related Side Effects and Adverse Reactions  (ISO)
dry eye syndrome  (ISO)
Experimental Diabetes Mellitus  (ISO)
Experimental Radiation Injuries  (ISO)
Fatigue  (ISO)
Fetal Growth Retardation  (ISO)
fragile X-associated tremor/ataxia syndrome  (ISO)
genetic disease  (ISO)
Genetic Predisposition to Disease  (ISO)
Gliosis  (ISO)
Hearing Loss  (ISO)
Hearing Loss, Noise-Induced  (ISO)
Hemolysis  (ISO)
hepatocellular carcinoma  (ISO)
hepatorenal syndrome  (ISO)
high grade glioma  (ISO)
hyperglycemia  (ISO)
hypertension  (ISO)
hyperthyroidism  (ISO)
Hypotension  (ISO)
Hypothermia  (ISO)
hypothyroidism  (ISO)
Hypoxia  (ISO)
Inflammation  (ISO)
iron deficiency anemia  (ISO)
ischemia  (ISO)
Kidney Calculi  (ISO)
liver disease  (ISO)
Liver Reperfusion Injury  (ISO)
low tension glaucoma  (ISO)
macular degeneration  (ISO)
Marfan syndrome  (ISO)
MELAS syndrome  (ISO)
metabolic dysfunction-associated steatohepatitis  (ISO)
middle cerebral artery infarction  (ISO)
motor neuron disease  (ISO)
Muscle Weakness  (ISO)
muscular atrophy  (ISO)
myelomeningocele  (ISO)
myocardial infarction  (ISO)
Myocardial Reperfusion Injury  (ISO)
Nasal Polyps  (ISO)
Necrosis  (ISO)
Neoplastic Cell Transformation  (ISO)
nephrosis  (ISO)
Nerve Degeneration  (ISO)
nervous system disease  (ISO)
Neurologic Gait Disorders  (ISO)
newborn respiratory distress syndrome  (ISO)
nutritional deficiency disease  (ISO)
obesity  (ISO)
ocular hypertension  (ISO)
Ovarian Neoplasms  (ISO)
Oxygen-Induced Retinopathy  (ISO)
pancreatic cancer  (ISO)
Paralysis  (ISO)
Parkinson's disease  (ISO)
Parkinson's disease 20  (ISO)
Pathological Protein Aggregation  (ISO)
polycystic kidney disease  (ISO)
Presbycusis  (ISO)
prion disease  (ISO)
progressive supranuclear palsy  (ISO)
Protein Deficiency  (ISO)
proteinuria  (ISO)
pulmonary fibrosis  (ISO)
renal artery obstruction  (ISO)
Reperfusion Injury  (ISO)
retinal degeneration  (ISO)
Retinal Neovascularization  (ISO)
retinitis pigmentosa  (ISO)
retinopathy of prematurity  (ISO)
Schistosomiasis Mansoni  (ISO)
sciatic neuropathy  (ISO)
scrapie  (ISO)
Sepsis  (ISO)
SPASTIC TETRAPLEGIA AND AXIAL HYPOTONIA, PROGRESSIVE  (ISO)
spinal cord disease  (ISO)
Spinal Cord Injuries  (ISO)
steatotic liver disease  (ISO)
Stroke  (ISO)
transient cerebral ischemia  (ISO)
Turner syndrome  (ISO)
type 1 diabetes mellitus  (ISO)
type 2 diabetes mellitus  (ISO)
Ureteral Calculi  (ISO)
urinary bladder cancer  (ISO)
Weight Loss  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
action potential initiation  (IEA,ISO)
anterograde axonal transport  (IEA)
apoptotic process  (IEA,ISO)
auditory receptor cell stereocilium organization  (IEA,ISO)
cellular response to ATP  (ISO)
cellular response to cadmium ion  (ISO)
cellular response to oxidative stress  (ISO)
cellular response to potassium ion  (ISO)
determination of adult lifespan  (IEA,ISO)
ectopic germ cell programmed cell death  (IEA,ISO)
embryo implantation  (IEA,ISO)
gene expression  (IEA,ISO)
glutathione metabolic process  (IEA,ISO)
heart contraction  (IEA,ISO)
hydrogen peroxide biosynthetic process  (IEA,ISO)
intracellular iron ion homeostasis  (IEA,ISO)
locomotory behavior  (IEA,ISO)
muscle cell cellular homeostasis  (IEA,ISO)
myeloid cell homeostasis  (IEA,ISO)
negative regulation of apoptotic process  (IEA,ISO)
negative regulation of cholesterol biosynthetic process  (IEA)
negative regulation of developmental process  (IEA,ISO)
negative regulation of inflammatory response  (IEA)
negative regulation of neuron apoptotic process  (IEA,ISO)
negative regulation of reproductive process  (IEA,ISO)
neurofilament cytoskeleton organization  (IEA,ISO)
neuronal action potential  (IEA,ISO)
ovarian follicle development  (IEA,ISO)
peripheral nervous system myelin maintenance  (IEA,ISO)
positive regulation of cytokine production  (IEA)
positive regulation of MAPK cascade  (IEA,ISO)
positive regulation of oxidative stress-induced intrinsic apoptotic signaling pathway  (IEA)
positive regulation of phagocytosis  (IEA)
positive regulation of superoxide anion generation  (IEA)
reactive oxygen species metabolic process  (IEA)
regulation of blood pressure  (IEA,ISO)
regulation of mitochondrial membrane potential  (IEA)
regulation of multicellular organism growth  (IEA,ISO)
relaxation of vascular associated smooth muscle  (IEA,ISO)
removal of superoxide radicals  (IEA,ISO)
response to amphetamine  (ISO)
response to antipsychotic drug  (ISO)
response to axon injury  (IEA,ISO)
response to carbon monoxide  (ISO)
response to copper ion  (ISO)
response to ethanol  (IEA,ISO)
response to heat  (IEA,ISO)
response to hydrogen peroxide  (IEA,ISO)
response to nutrient levels  (ISO)
response to oxidative stress  (IEA,ISO)
response to reactive oxygen species  (IEA,ISO)
response to superoxide  (IEA,ISO)
response to xenobiotic stimulus  (IEA,ISO)
retina homeostasis  (IEA,ISO)
retrograde axonal transport  (IEA)
sensory perception of sound  (IEA,ISO)
spermatogenesis  (IEA,ISO)
superoxide anion generation  (IEA,ISO)
superoxide metabolic process  (IEA,ISO)
transmission of nerve impulse  (IEA,ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Sod1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497127,114,944 - 27,122,669 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493650010,345,154 - 10,352,867 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493650010,345,154 - 10,352,873 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SOD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382131,659,693 - 31,668,931 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2131,659,666 - 31,668,931 (+)EnsemblGRCh38hg38GRCh38
GRCh372133,032,006 - 33,041,244 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362131,953,806 - 31,963,115 (+)NCBINCBI36Build 36hg18NCBI36
Build 342131,953,805 - 31,963,112NCBI
Celera2118,215,252 - 18,224,561 (+)NCBICelera
Cytogenetic Map21q22.11ENTREZGENE
HuRef2118,441,963 - 18,451,272 (+)NCBIHuRef
CHM1_12132,593,921 - 32,603,230 (+)NCBICHM1_1
T2T-CHM13v2.02130,027,677 - 30,036,914 (+)NCBIT2T-CHM13v2.0
Sod1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391690,017,650 - 90,023,221 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1690,017,642 - 90,023,217 (+)EnsemblGRCm39 Ensembl
GRCm381690,220,762 - 90,226,333 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1690,220,754 - 90,226,329 (+)EnsemblGRCm38mm10GRCm38
MGSCv371690,220,987 - 90,226,569 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361690,109,601 - 90,115,183 (+)NCBIMGSCv36mm8
Celera1690,416,380 - 90,421,958 (+)NCBICelera
Cytogenetic Map16C3.3NCBI
cM Map1651.56NCBI
Sod1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81142,942,742 - 42,948,399 (+)NCBIGRCr8
mRatBN7.21129,456,673 - 29,462,249 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1129,456,558 - 29,462,249 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1138,144,681 - 38,150,257 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01130,816,072 - 30,821,648 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01130,005,455 - 30,011,012 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01130,363,282 - 30,368,858 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1130,363,280 - 30,368,862 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01133,982,764 - 33,988,340 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41129,810,766 - 29,816,342 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11129,810,765 - 29,816,342 (-)NCBI
Celera1129,143,740 - 29,149,316 (+)NCBICelera
Cytogenetic Map11q11NCBI
Sod1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540731,263,863 - 31,267,727 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540731,261,451 - 31,267,657 (+)NCBIChiLan1.0ChiLan1.0
SOD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22227,780,102 - 27,788,228 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12122,639,842 - 22,647,619 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02118,029,831 - 18,037,526 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12131,411,702 - 31,419,432 (+)NCBIpanpan1.1PanPan1.1panPan2
SOD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13126,540,291 - 26,544,212 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3126,486,274 - 26,662,815 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3126,528,080 - 26,536,169 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03126,654,922 - 26,662,986 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3126,654,409 - 26,782,319 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13126,600,785 - 26,608,887 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03126,612,632 - 26,620,712 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03127,118,829 - 27,126,937 (+)NCBIUU_Cfam_GSD_1.0
SOD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13195,326,649 - 195,337,729 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113195,326,573 - 195,335,273 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213205,620,994 - 205,629,705 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SOD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1260,461,219 - 60,472,999 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660713,004,172 - 3,013,463 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sod1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474520,032,011 - 20,037,958 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474520,032,003 - 20,037,958 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005323540 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAESOR010000030 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSSTOT00000004429   ⟹   ENSSTOP00000003972
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_00493650010,345,154 - 10,352,867 (-)Ensembl
RefSeq Acc Id: XM_005323540   ⟹   XP_005323597
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440497127,114,944 - 27,122,669 (+)NCBI
SpeTri2.0NW_00493650010,345,154 - 10,352,873 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005323597 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000003972.3
GenBank Protein KAG3283861 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_005323597   ⟸   XM_005323540
- UniProtKB: I3M480 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSTOP00000003972   ⟸   ENSSTOT00000004429
Protein Domains
Superoxide dismutase copper/zinc binding


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000004434 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000004429.3 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.200 UniProtKB/TrEMBL
InterPro SOD-like_Cu/Zn_dom_sf UniProtKB/TrEMBL
  SOD_Cu/Zn_/chaperone UniProtKB/TrEMBL
  SOD_Cu/Zn_BS UniProtKB/TrEMBL
  SOD_Cu_Zn_dom UniProtKB/TrEMBL
NCBI Gene Sod1 ENTREZGENE
PANTHER PTHR10003 UniProtKB/TrEMBL
  SUPEROXIDE DISMUTASE [CU-ZN] UniProtKB/TrEMBL
Pfam Sod_Cu UniProtKB/TrEMBL
PRINTS CUZNDISMTASE UniProtKB/TrEMBL
PROSITE SOD_CU_ZN_1 UniProtKB/TrEMBL
  SOD_CU_ZN_2 UniProtKB/TrEMBL
Superfamily-SCOP SSF49329 UniProtKB/TrEMBL
UniProt I3M480 ENTREZGENE, UniProtKB/TrEMBL