Smpd3 (sphingomyelin phosphodiesterase 3, neutral) - Rat Genome Database

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Gene: Smpd3 (sphingomyelin phosphodiesterase 3, neutral) Mus musculus
Analyze
Symbol: Smpd3
Name: sphingomyelin phosphodiesterase 3, neutral
RGD ID: 1551964
MGI Page MGI
Description: Exhibits identical protein binding activity; neutral sphingomyelin phosphodiesterase activity; and phospholipid binding activity. Involved in several processes, including animal organ development; enzyme linked receptor protein signaling pathway; and sphingolipid metabolic process. Localizes to Golgi cis cisterna and plasma membrane. Is expressed in several structures, including alimentary system; limb; nervous system; sensory organ; and skeleton. Used to study hypopituitarism; osteogenesis imperfecta; osteogenesis imperfecta type 2; and osteogenesis imperfecta type 3. Orthologous to human SMPD3 (sphingomyelin phosphodiesterase 3); PARTICIPATES IN ceramide signaling pathway; sphingolipid metabolic pathway; INTERACTS WITH (S)-nicotine; 1,2-dimethylhydrazine; 1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 4631433G07Rik; AI427456; AW537966; f; fro; neutral sphingomyelinase 2; neutral sphingomyelinase II; nSM; nSMase-2; nSMase2; sphingomyelin phosphodiesterase 3
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398106,979,180 - 107,064,597 (-)NCBIGRCm39mm39
GRCm39 Ensembl8106,979,180 - 107,064,620 (-)Ensembl
GRCm388106,252,548 - 106,337,965 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8106,252,548 - 106,337,988 (-)EnsemblGRCm38mm10GRCm38
MGSCv378108,776,448 - 108,861,888 (-)NCBIGRCm37mm9NCBIm37
MGSCv368109,141,677 - 109,227,117 (-)NCBImm8
Celera8110,480,448 - 110,565,952 (-)NCBICelera
Cytogenetic Map8D3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (ISO)
(S)-nicotine  (EXP)
1,2-dimethylhydrazine  (EXP)
1-[(4-chlorophenyl)-phenylmethyl]-4-methylpiperazine  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (EXP)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,2',5,5'-tetrachlorobiphenyl  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (ISO)
2-amino-2-deoxy-D-glucopyranose  (ISO)
2-hydroxypropanoic acid  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3,4-dichloroaniline  (ISO)
4-hydroxyphenyl retinamide  (EXP)
5-aza-2'-deoxycytidine  (EXP)
6-propyl-2-thiouracil  (ISO)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
aldehydo-D-glucosamine  (ISO)
all-trans-retinoic acid  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[e]pyrene  (ISO)
Benzo[k]fluoranthene  (EXP)
beta-D-glucosamine  (ISO)
bisphenol A  (ISO)
caffeine  (EXP)
camptothecin  (ISO)
carbon nanotube  (EXP)
cholesterol  (EXP)
choline  (EXP)
chrysene  (EXP)
copper(II) sulfate  (ISO)
cyproconazole  (EXP)
daunorubicin  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dichloroacetic acid  (EXP)
dieldrin  (ISO)
diuron  (ISO)
endosulfan  (ISO)
epoxiconazole  (EXP)
ethanol  (EXP)
fenamidone  (EXP)
fenofibrate  (EXP)
fipronil  (ISO)
flavonoids  (ISO)
folic acid  (EXP)
fumonisin B1  (EXP)
furan  (ISO)
GW 4064  (EXP)
hydrogen peroxide  (ISO)
Indeno[1,2,3-cd]pyrene  (EXP)
L-methionine  (EXP)
Lasiocarpine  (ISO)
lithocholic acid  (EXP)
magnesium dichloride  (EXP)
methapyrilene  (ISO)
methotrexate  (EXP)
N-nitrosodiethylamine  (EXP,ISO)
N-Nitrosopyrrolidine  (ISO)
nickel dichloride  (ISO)
nicotine  (EXP)
O-methyleugenol  (ISO)
oxaliplatin  (ISO)
p-toluidine  (ISO)
paracetamol  (EXP,ISO)
PCB138  (EXP)
phenethyl caffeate  (EXP)
phenobarbital  (EXP)
pirinixic acid  (EXP)
propanal  (ISO)
propiconazole  (EXP)
rac-lactic acid  (ISO)
sodium arsenate  (EXP,ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
tetrachloromethane  (ISO)
titanium dioxide  (EXP)
topotecan  (ISO)
triadimefon  (EXP)
tributyl phosphate  (EXP)
trichostatin A  (EXP)
triclosan  (ISO)
triphenyl phosphate  (EXP)
tris(2-butoxyethyl) phosphate  (EXP,ISO)
tris(2-chloroethyl) phosphate  (EXP)
undecane  (ISO)
urethane  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
aging  (ISO)
artery smooth muscle contraction  (ISO)
BMP signaling pathway  (IDA)
bone development  (IMP)
bone growth  (IMP)
bone mineralization  (IDA,IMP)
cartilage development  (IDA,IMP)
cellular response to hydrogen peroxide  (IDA)
cellular response to interleukin-1  (ISO)
cellular response to magnesium ion  (IDA)
cellular response to oxidised low-density lipoprotein particle stimulus  (IMP)
cellular response to peptide  (IMP)
cellular response to reactive oxygen species  (IMP)
cellular response to redox state  (IMP)
cellular response to tumor necrosis factor  (IMP)
ceramide metabolic process  (IMP)
chondrocyte development  (IMP)
chondrocyte development involved in endochondral bone morphogenesis  (IMP)
collagen metabolic process  (IMP)
dentinogenesis  (IMP)
DNA biosynthetic process  (IMP)
dopamine uptake  (ISO)
endochondral ossification  (IMP)
extracellular matrix assembly  (IMP)
G1 to G0 transition  (IMP)
hematopoietic progenitor cell differentiation  (IMP)
lipid metabolic process  (IEA)
lung alveolus development  (IMP)
lung development  (IMP)
mitotic nuclear division  (IMP)
multicellular organism growth  (IDA,IMP)
negative regulation of cytosolic calcium ion concentration  (ISO)
negative regulation of hyaluronan biosynthetic process  (IMP)
ossification  (IMP)
peptide hormone secretion  (IMP)
platelet-derived growth factor receptor signaling pathway  (IMP)
polysaccharide transport  (IMP)
positive regulation of ceramide biosynthetic process  (ISO)
positive regulation of exosomal secretion  (ISO)
positive regulation of mitotic nuclear division  (IGI)
positive regulation of NIK/NF-kappaB signaling  (ISO)
positive regulation of nitric oxide biosynthetic process  (ISO)
positive regulation of smooth muscle cell proliferation  (IMP)
protein kinase B signaling  (IMP)
regulation of cartilage development  (IMP)
regulation of hyaluronan biosynthetic process  (IMP)
regulation of leukocyte migration  (IMP)
regulation of protein phosphorylation  (IMP)
respiratory system development  (IMP)
signal transduction  (IMP,TAS)
skeletal system development  (IDA,IMP)
sphingolipid mediated signaling pathway  (IDA)
sphingolipid metabolic process  (IMP)
sphingomyelin catabolic process  (IMP)
sphingomyelin metabolic process  (IBA,IDA)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal adenohypophysis morphology  (IAGP)
abnormal alveolar process morphology  (IAGP)
abnormal bone mineralization  (IAGP)
abnormal bone ossification  (IAGP)
abnormal cartilage development  (IAGP)
abnormal clavicle morphology  (IAGP)
abnormal dentin development  (IAGP)
abnormal epiphyseal plate morphology  (IAGP)
abnormal femur morphology  (IAGP)
abnormal fibula morphology  (IAGP)
abnormal humerus morphology  (IAGP)
abnormal ischium morphology  (IAGP)
abnormal limb bone morphology  (IAGP)
abnormal limb morphology  (IAGP)
abnormal lipid level  (IAGP)
abnormal long bone metaphysis morphology  (IAGP)
abnormal long bone morphology  (IAGP)
abnormal olecranon morphology  (IAGP)
abnormal osteoblast morphology  (IAGP)
abnormal ovarian follicle morphology  (IAGP)
abnormal ovary development  (IAGP)
abnormal perichondrium morphology  (IAGP)
abnormal periosteum morphology  (IAGP)
abnormal pituicyte morphology  (IAGP)
abnormal pubis morphology  (IAGP)
abnormal pulmonary alveolus morphology  (IAGP)
abnormal rib morphology  (IAGP)
abnormal scapula morphology  (IAGP)
abnormal spermatogenesis  (IAGP)
abnormal sternum ossification  (IAGP)
abnormal testis development  (IAGP)
abnormal tibia morphology  (IAGP)
bowed humerus  (IAGP)
bowed radius  (IAGP)
bowed tibia  (IAGP)
bowed ulna  (IAGP)
cyanosis  (IAGP)
decreased body height  (IAGP)
decreased body length  (IAGP)
decreased body size  (IAGP)
decreased bone mineral density  (IAGP)
decreased bone trabecula number  (IAGP)
decreased circulating cortisol level  (IAGP)
decreased circulating insulin-like growth factor I level  (IAGP)
decreased corticotroph cell number  (IAGP)
decreased gonadotroph cell number  (IAGP)
decreased length of long bones  (IAGP)
decreased somatotroph cell number  (IAGP)
decreased survivor rate  (IAGP)
decreased thyrotroph cell number  (IAGP)
decreased thyroxine level  (IAGP)
decreased triiodothyronine level  (IAGP)
decreased width of hypertrophic chondrocyte zone  (IAGP)
delayed bone ossification  (IAGP)
delayed sexual maturation  (IAGP)
disproportionate dwarf  (IAGP)
emphysema  (IAGP)
fetal growth retardation  (IAGP)
increased circulating parathyroid hormone level  (IAGP)
increased lung compliance  (IAGP)
increased width of hypertrophic chondrocyte zone  (IAGP)
overexpanded pulmonary alveoli  (IAGP)
postnatal lethality, incomplete penetrance  (IAGP)
reduced fertility  (IAGP)
respiratory distress  (IAGP)
rib fractures  (IAGP)
short femur  (IAGP)
short humerus  (IAGP)
short ribs  (IAGP)
short ulna  (IAGP)
References

Additional References at PubMed
PMID:1793673   PMID:6391574   PMID:6801109   PMID:8456819   PMID:10349636   PMID:10823942   PMID:10922068   PMID:11042159   PMID:11076861   PMID:12477932   PMID:12566438   PMID:14681479  
PMID:15051724   PMID:15489334   PMID:15537664   PMID:15721162   PMID:15764706   PMID:15929065   PMID:16025116   PMID:16141072   PMID:16141073   PMID:16829211   PMID:16938269   PMID:16949565  
PMID:17130451   PMID:17561096   PMID:17591962   PMID:17626887   PMID:18299447   PMID:18309083   PMID:19092943   PMID:19250608   PMID:20080539   PMID:20352118   PMID:20629193   PMID:21267068  
PMID:21550973   PMID:21788370   PMID:21873635   PMID:22074919   PMID:22383528   PMID:22910579   PMID:22945695   PMID:23046545   PMID:23428435   PMID:23439645   PMID:23651497   PMID:23840630  
PMID:23973266   PMID:24029230   PMID:24505141   PMID:24585429   PMID:25047167   PMID:25287744   PMID:25347576   PMID:25555205   PMID:25574848   PMID:26138644   PMID:27208706   PMID:27325675  
PMID:27882938   PMID:28377412   PMID:28889482   PMID:28961856   PMID:29141446   PMID:29567647   PMID:29725009   PMID:29794115   PMID:30530524   PMID:30866785   PMID:31199918   PMID:31202927  
PMID:32325033   PMID:33027663  


Genomics

Comparative Map Data
Smpd3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398106,979,180 - 107,064,597 (-)NCBIGRCm39mm39
GRCm39 Ensembl8106,979,180 - 107,064,620 (-)Ensembl
GRCm388106,252,548 - 106,337,965 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8106,252,548 - 106,337,988 (-)EnsemblGRCm38mm10GRCm38
MGSCv378108,776,448 - 108,861,888 (-)NCBIGRCm37mm9NCBIm37
MGSCv368109,141,677 - 109,227,117 (-)NCBImm8
Celera8110,480,448 - 110,565,952 (-)NCBICelera
Cytogenetic Map8D3NCBI
SMPD3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1668,358,327 - 68,448,508 (-)EnsemblGRCh38hg38GRCh38
GRCh381668,358,327 - 68,448,703 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371668,392,230 - 68,482,411 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361666,949,731 - 67,039,905 (-)NCBINCBI36hg18NCBI36
Build 341666,949,732 - 67,039,905NCBI
Celera1652,900,779 - 52,990,952 (-)NCBI
Cytogenetic Map16q22.1NCBI
HuRef1654,265,453 - 54,355,875 (-)NCBIHuRef
CHM1_11669,800,294 - 69,890,458 (-)NCBICHM1_1
Smpd3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21934,162,337 - 34,245,786 (-)NCBI
Rnor_6.0 Ensembl1938,237,965 - 38,321,528 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01938,237,963 - 38,321,572 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01949,107,658 - 49,191,221 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41936,112,166 - 36,195,564 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11936,117,046 - 36,200,445 (-)NCBI
Celera1933,589,416 - 33,672,639 (-)NCBICelera
RH 3.4 Map19304.3RGD
Cytogenetic Map19q12NCBI
Smpd3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554848,272,572 - 8,298,144 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554848,207,686 - 8,298,164 (+)NCBIChiLan1.0ChiLan1.0
SMPD3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11668,129,034 - 68,219,625 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1668,131,905 - 68,142,871 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01648,734,664 - 48,825,241 (-)NCBIMhudiblu_PPA_v0panPan3
SMPD3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1581,089,657 - 81,172,173 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl581,142,888 - 81,172,189 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha581,080,156 - 81,162,625 (+)NCBI
ROS_Cfam_1.0581,524,565 - 81,607,194 (+)NCBI
UMICH_Zoey_3.1581,351,425 - 81,433,990 (+)NCBI
UNSW_CanFamBas_1.0581,034,510 - 81,116,929 (+)NCBI
UU_Cfam_GSD_1.0581,675,446 - 81,757,898 (+)NCBI
Smpd3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934940,833,996 - 40,920,586 (+)NCBI
SpeTri2.0NW_00493647518,667,563 - 18,755,132 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SMPD3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl628,938,290 - 29,025,357 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1628,938,287 - 29,025,397 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2626,117,915 - 26,204,889 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SMPD3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1558,965,965 - 59,057,823 (+)NCBI
ChlSab1.1 Ensembl559,029,093 - 59,059,577 (+)Ensembl
Vero_WHO_p1.0NW_02366604721,702,920 - 21,795,181 (+)NCBI
Smpd3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474617,857,779 - 17,948,469 (+)NCBI

Position Markers
AI427456  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm388106,252,505 - 106,252,599UniSTSGRCm38
MGSCv378108,776,405 - 108,776,499UniSTSGRCm37
Celera8110,480,405 - 110,480,499UniSTS
Cytogenetic Map8D3UniSTS
Cytogenetic Map8D2UniSTS
Whitehead/MRC_RH81233.27UniSTS
Whitehead/MRC_RH81232.79UniSTS
Smpd3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm388106,264,729 - 106,265,629UniSTSGRCm38
MGSCv378108,788,629 - 108,789,529UniSTSGRCm37
Celera8110,492,629 - 110,493,529UniSTS
Cytogenetic Map8D2UniSTS
cM Map8 UniSTS
Smpd3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm388106,254,728 - 106,255,264UniSTSGRCm38
MGSCv378108,778,628 - 108,779,164UniSTSGRCm37
Celera8110,482,628 - 110,483,164UniSTS
Cytogenetic Map8D2UniSTS
cM Map8 UniSTS
Smpd3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm388106,274,872 - 106,274,941UniSTSGRCm38
MGSCv378108,798,772 - 108,798,841UniSTSGRCm37
Celera8110,502,910 - 110,502,979UniSTS
Cytogenetic Map8D2UniSTS
Smpd3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm388106,255,332 - 106,255,660UniSTSGRCm38
MGSCv378108,779,232 - 108,779,560UniSTSGRCm37
Celera8110,483,232 - 110,483,560UniSTS
Cytogenetic Map8D2UniSTS
Smpd3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map8D2UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4140967Bmd39_mbone mineral density 39 (mouse)Not determined832016544117238700Mouse
1558875Eae31_mexperimental allergic encephalomyelitis susceptibility 31 (mouse)Not determined834642776114837007Mouse
27226754Femd6_mfemur midshaft diameter 6, 10 week (mouse)837400000109600000Mouse
4142023W3q5_mweight 3 weeks QTL 5 (mouse)Not determined71287817123895615Mouse
1357708Orq1_movulation rate QTL 1 (mouse)Not determined871287817123895615Mouse
1300920Pitm3_mprion incubation time 3 (mouse)Not determined873202495107202598Mouse
27095912Pglq14_mpelvic girdle length QTL 14, 16 week (mouse)873400000126100000Mouse
1558890Lith18_mlithogenic gene 18 (mouse)Not determined875675517109675623Mouse
1357470Obq16_mobesity QTL 16 (mouse)Not determined875685348109685497Mouse
1301808Nhdlq1_mnon-HDL QTL 1 (mouse)Not determined875685348109685497Mouse
1301874Hdlq16_mHDL QTL 16 (mouse)Not determined875685348109685497Mouse
10412234Nhdlq14_mnon-HDL QTL 14 (mouse)Not determined875685348109685497Mouse
1301099Cbm2_mcerebellum weight 2 (mouse)Not determined878518613112518703Mouse
1301581Char2_mP. chabaudi malaria resistance QTL 2 (mouse)Not determined879082178113082403Mouse
10755530Wbc2_mwhite blood cell count 2 (mouse)881092664115092664Mouse
10755519Wbc1_mwhite blood cell count 1 (mouse)881619151115619151Mouse
1301766Desp1_mdespair 1 (mouse)Not determined884759576118759741Mouse
1302049Heal1_mwound healing/regeneration 1 (mouse)Not determined885716921119717069Mouse
1301253Skmw2_mskeletal muscle weight 2 (mouse)Not determined885716921119717069Mouse
10045619Heal14_mwound healing/regeneration 14 (mouse)Not determined885716921119717069Mouse
27226796Scvln16_msacral vertebrae length 2, 16 week (mouse)889000000130800000Mouse
1357494Obsty2_mobesity 2 (mouse)Not determined895518613129018580Mouse
12880431Fgf23lq2_mFGF23 serum level QTL 2 (mouse)896900000129401213Mouse
11252141Fdr2_mfat response to dietary restriction 2 (mouse)897663894129401213Mouse
1301481Lith11_mlithogenic gene 11 (mouse)Not determined897836895129401213Mouse
1301080Sluc9_msusceptibility to lung cancer 9 (mouse)Not determined899101792129401213Mouse
1302105Im1_mImmunoregulatory 1 (mouse)Not determined899101792129401213Mouse
4141435Fbtq3_mfemoral bone trait QTL 3 (mouse)Not determined8100238570129401213Mouse
1300560Tgl1_mtriglyceride level 1 (mouse)Not determined8101759576110923404Mouse
1300681Pgia22_mproteoglycan induced arthritis 22 (mouse)Not determined8101759576115298718Mouse
1301316Dntcs1_mdental caries susceptibility 1 (mouse)Not determined8102716921127055036Mouse
11532691Sluc38_msusceptibility to lung cancer 38 (mouse)8104307238129401213Mouse
11532692Sluc38a_msusceptibility to lung cancer 38a (mouse)8104307238129401213Mouse
14746994Manh65_mmandible shape 65 (mouse)8105762890129401213Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:986
Count of miRNA genes:553
Interacting mature miRNAs:647
Transcripts:ENSMUST00000067512
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_021491 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006531241 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011248462 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011248463 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC124544 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC134615 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ250461 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK019476 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK076416 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK087515 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK139226 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK140788 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK162894 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK164142 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY836550 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC034194 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC043077 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC046980 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466525 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000067512   ⟹   ENSMUSP00000069255
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl8106,252,548 - 106,337,988 (-)Ensembl
RefSeq Acc Id: ENSMUST00000212896   ⟹   ENSMUSP00000148282
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl8106,254,890 - 106,280,978 (-)Ensembl
RefSeq Acc Id: NM_021491   ⟹   NP_067466
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398106,979,180 - 107,064,597 (-)NCBI
GRCm388106,252,548 - 106,337,965 (-)NCBI
MGSCv378108,776,448 - 108,861,888 (-)RGD
Celera8110,480,448 - 110,565,952 (-)RGD
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006531241   ⟹   XP_006531304
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398106,979,180 - 107,009,842 (-)NCBI
GRCm388106,252,548 - 106,283,213 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011248462   ⟹   XP_011246764
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398106,979,180 - 107,008,287 (-)NCBI
GRCm388106,252,548 - 106,281,655 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011248463   ⟹   XP_011246765
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398106,979,180 - 107,008,188 (-)NCBI
GRCm388106,252,548 - 106,281,555 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_067466   ⟸   NM_021491
- UniProtKB: Q9JJY3 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006531304   ⟸   XM_006531241
- Peptide Label: isoform X1
- UniProtKB: Q9JJY3 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_011246764   ⟸   XM_011248462
- Peptide Label: isoform X1
- UniProtKB: Q9JJY3 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_011246765   ⟸   XM_011248463
- Peptide Label: isoform X1
- UniProtKB: Q9JJY3 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000069255   ⟸   ENSMUST00000067512
RefSeq Acc Id: ENSMUSP00000148282   ⟸   ENSMUST00000212896

Promoters
RGD ID:8668177
Promoter ID:EPDNEW_M12119
Type:single initiation site
Name:Smpd3_2
Description:Mus musculus sphingomyelin phosphodiesterase 3, neutral , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M12120  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm388106,283,215 - 106,283,275EPDNEW
RGD ID:8668179
Promoter ID:EPDNEW_M12120
Type:initiation region
Name:Smpd3_1
Description:Mus musculus sphingomyelin phosphodiesterase 3, neutral , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M12119  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm388106,337,963 - 106,338,023EPDNEW
RGD ID:6843746
Promoter ID:MM_KWN:55613
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day3,   BoneMarrow_0Hour,   Brain,   ES_Cell,   Kidney,   Lung,   MEF_B6
Transcripts:NM_021491,   UC009NFZ.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv368108,861,824 - 108,862,324 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1927578 AgrOrtholog
Ensembl Genes ENSMUSG00000031906 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000069255 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000148282 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000067512 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000212896 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro Endo/exonu/phosph_ase_sf UniProtKB/Swiss-Prot
  Endo/exonuclease/phosphatase UniProtKB/Swiss-Prot
  Sphingomyelinase/PLipase_C UniProtKB/Swiss-Prot
KEGG Report mmu:58994 UniProtKB/Swiss-Prot
MGD MGI:1927578 ENTREZGENE
NCBI Gene 58994 ENTREZGENE
Pfam Exo_endo_phos UniProtKB/Swiss-Prot
PhenoGen Smpd3 PhenoGen
Superfamily-SCOP SSF56219 UniProtKB/Swiss-Prot
UniProt NSMA2_MOUSE UniProtKB/Swiss-Prot
  Q3US57_MOUSE UniProtKB/TrEMBL
  Q9JJY3 ENTREZGENE
UniProt Secondary Q3UTQ5 UniProtKB/Swiss-Prot