Synpo (synaptopodin) - Rat Genome Database

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Advanced Search (OLGA)
Gene: Synpo (synaptopodin) Rattus norvegicus
Analyze
Symbol: Synpo (Ensembl: Myoz3)
Name: synaptopodin (Ensembl:myozenin 3)
RGD ID: 620668
Description: Predicted to enable actin binding activity. Predicted to be involved in several processes, including modulation of chemical synaptic transmission; regulation of actin filament bundle assembly; and regulation of postsynaptic cytosolic calcium ion concentration. Is active in glutamatergic synapse and spine apparatus. Orthologous to human SYNPO (synaptopodin); INTERACTS WITH (+)-schisandrin B; 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81856,326,369 - 56,347,359 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1856,319,571 - 56,353,306 (-)EnsemblGRCr8
mRatBN7.21854,048,299 - 54,106,388 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1854,026,152 - 54,102,126 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1856,144,901 - 56,165,878 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01856,859,497 - 56,880,474 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01854,679,863 - 54,700,853 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01855,863,081 - 55,921,412 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1855,865,467 - 55,916,220 (-)Ensemblrn6Rnor6.0
Rnor_5.01855,096,559 - 55,154,838 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41856,552,991 - 56,573,981 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1852,210,523 - 52,231,513 (-)NCBICelera
RGSC_v3.11856,625,222 - 56,627,418 (-)NCBI
Cytogenetic Map18q12.1NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(+)-schisandrin B  (EXP)
(S)-nicotine  (ISO)
1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1,8-cineole  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-tribromophenol  (ISO)
2-[4-[(E)-2-(6,8-dichloro-2-phenyl-2H-chromen-3-yl)ethenyl]phenyl]-4,4,5,5-tetramethyl-1,3,2-dioxaborolane  (ISO)
2-butoxyethanol  (ISO)
3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-\{[(5,5,8,8-tetramethyl-5,6,7,8-tetrahydronaphthalen-2-yl)carbonyl]amino\}benzoic acid  (ISO)
acetamide  (EXP)
aflatoxin B1  (EXP,ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
buta-1,3-diene  (ISO)
butanal  (ISO)
Butylbenzyl phthalate  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
cholesterol  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
cisplatin  (EXP,ISO)
clemizole  (EXP)
clofibrate  (ISO)
clothianidin  (ISO)
copper(II) chloride  (ISO)
coumarin  (ISO)
cycloheximide  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
dichloroacetic acid  (ISO)
diethylstilbestrol  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
ergosta-4,6,8(14),22-tetraen-3-one  (ISO)
estriol  (ISO)
ethanol  (ISO)
folic acid  (ISO)
FR900359  (ISO)
gefitinib  (ISO)
genistein  (ISO)
gentamycin  (EXP)
indometacin  (ISO)
L-methionine  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
methapyrilene  (ISO)
methoxychlor  (EXP)
methyl methanesulfonate  (ISO)
Monobutylphthalate  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
naled  (ISO)
naphthalene  (ISO)
nicotine  (ISO)
nitrofen  (EXP)
okadaic acid  (ISO)
paracetamol  (EXP)
perfluorodecanoic acid  (ISO)
phenobarbital  (ISO)
pirinixic acid  (ISO)
propanal  (ISO)
raloxifene  (ISO)
resveratrol  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sulforaphane  (ISO)
tamoxifen  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
tremolite asbestos  (ISO)
triphenyl phosphate  (ISO)
Triptolide  (ISO)
valproic acid  (EXP,ISO)
vitamin E  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function
actin binding  (IBA,IEA,ISO,ISS)
protein binding  (ISO)

References

References - curated
# Reference Title Reference Citation
1. Actin-associated protein synaptopodin in the rat hippocampal formation: localization in the spine neck and close association with the spine apparatus of principal neurons. Deller T, etal., J Comp Neurol. 2000 Mar 6;418(2):164-81.
2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. Therapeutic potential of human induced pluripotent stem cells and renal progenitor cells in experimental chronic kidney disease. Ribeiro PC, etal., Stem Cell Res Ther. 2020 Dec 9;11(1):530. doi: 10.1186/s13287-020-02060-4.
8. Regulated expression of an actin-associated protein, synaptopodin, during long-term potentiation. Yamazaki M, etal., J Neurochem 2001 Oct;79(1):192-9.
9. Novel retinoic acid receptor alpha agonists for treatment of kidney disease. Zhong Y, etal., PLoS One. 2011;6(11):e27945. doi: 10.1371/journal.pone.0027945. Epub 2011 Nov 18.
Additional References at PubMed
PMID:9314539   PMID:12928494   PMID:15057822   PMID:15841212   PMID:16052494   PMID:16998909   PMID:18424168   PMID:19052472   PMID:21940706   PMID:22871113   PMID:24625528   PMID:25164660  
PMID:26840625   PMID:29476059   PMID:30661770   PMID:30744518   PMID:31371487   PMID:35352799  


Genomics

Comparative Map Data
Synpo
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81856,326,369 - 56,347,359 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1856,319,571 - 56,353,306 (-)EnsemblGRCr8
mRatBN7.21854,048,299 - 54,106,388 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1854,026,152 - 54,102,126 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1856,144,901 - 56,165,878 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01856,859,497 - 56,880,474 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01854,679,863 - 54,700,853 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01855,863,081 - 55,921,412 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1855,865,467 - 55,916,220 (-)Ensemblrn6Rnor6.0
Rnor_5.01855,096,559 - 55,154,838 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41856,552,991 - 56,573,981 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1852,210,523 - 52,231,513 (-)NCBICelera
RGSC_v3.11856,625,222 - 56,627,418 (-)NCBI
Cytogenetic Map18q12.1NCBI
SYNPO
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385150,586,010 - 150,659,207 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5150,601,080 - 150,659,208 (+)Ensemblhg38GRCh38
GRCh375149,980,638 - 150,038,769 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365150,000,433 - 150,017,145 (+)NCBIBuild 36Build 36hg18NCBI36
Build 345150,000,432 - 150,017,145NCBI
Celera5146,061,703 - 146,120,135 (+)NCBICelera
Cytogenetic Map5q33.1NCBI
HuRef5145,127,069 - 145,185,217 (+)NCBIHuRef
CHM1_15149,413,067 - 149,471,214 (+)NCBICHM1_1
T2T-CHM13v2.05151,122,525 - 151,195,715 (+)NCBIT2T-CHM13v2.0
Synpo
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391860,727,053 - 60,793,241 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1860,727,045 - 60,793,214 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381860,593,981 - 60,660,173 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1860,593,973 - 60,660,142 (-)Ensemblmm10GRCm38
MGSCv371860,753,644 - 60,783,959 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361860,719,342 - 60,749,998 (-)NCBIMGSCv36mm8
Celera1861,877,103 - 61,907,329 (-)NCBICelera
Cytogenetic Map18D3- E1NCBI
cM Map1834.36NCBI
Synpo
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554153,932,192 - 3,990,022 (-)Ensembl
ChiLan1.0NW_0049554153,929,781 - 3,977,769 (-)NCBIChiLan1.0ChiLan1.0
SYNPO
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24145,853,273 - 145,887,848 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15143,992,845 - 144,027,395 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05146,048,956 - 146,083,490 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15152,046,461 - 152,087,703 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5152,046,207 - 152,085,595 (+)EnsemblpanPan2panpan1.1
SYNPO
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1458,501,361 - 58,549,340 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl458,497,734 - 58,550,438 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha458,260,078 - 58,297,258 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0458,974,689 - 59,011,637 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl458,974,684 - 59,029,816 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1458,763,050 - 58,800,212 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0458,877,636 - 58,914,546 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0459,408,732 - 59,445,642 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Synpo
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213142,748,009 - 142,801,743 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365044,321,962 - 4,358,294 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365044,321,985 - 4,358,757 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SYNPO
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2151,599,597 - 151,632,099 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.12151,571,264 - 151,634,103 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SYNPO
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12353,189,617 - 53,261,808 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2353,220,796 - 53,262,103 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366603424,452,467 - 24,493,442 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Synpo
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247749,902,851 - 9,910,752 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247749,860,274 - 9,912,722 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Synpo
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11571,315,914 - 71,350,161 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Synpo
106 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:224
Count of miRNA genes:112
Interacting mature miRNAs:124
Transcripts:ENSRNOT00000025934, ENSRNOT00000025989, ENSRNOT00000064686
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331733Bp233Blood pressure QTL 2333.97196arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182507112683910656Rat
1358358Sradr6Stress Responsive Adrenal Weight QTL 62.49adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)182201556261600538Rat
1331730Scl27Serum cholesterol level QTL 273.826blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)185449080186134022Rat
1331741Bp232Blood pressure QTL 2323.59112arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182349405785487725Rat
1331742Bp228Blood pressure QTL 2283.88752arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183161050577371277Rat
1331736Bp227Blood pressure QTL 2272.791arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)184891705460064728Rat
1300125Rf26Renal function QTL 263.2urine potassium amount (VT:0010539)urine potassium excretion rate (CMO:0000761)185335052168120379Rat
631834Sach3Saccharin preference QTL 33.90.01consumption behavior trait (VT:0002069)calculated saccharin drink intake volume (CMO:0001600)183857591983575919Rat
12904668Bw188Body weight QTL 1880.03body mass (VT:0001259)body weight (CMO:0000012)182682218671822186Rat
12904669Cm125Cardiac mass QTL 1250.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)182682218671822186Rat
12904670Cm126Cardiac mass QTL 1260.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)182682218671822186Rat
6893683Bw110Body weight QTL 1102.70.002body mass (VT:0001259)body weight (CMO:0000012)184562030686134022Rat
1331727Bp237Blood pressure QTL 2373.053arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183161050563968306Rat
12904677Kidm72Kidney mass QTL 720.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)182682218671822186Rat
9589041Epfw12Epididymal fat weight QTL 1217.080.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)184891573786134022Rat
8694432Bw165Body weight QTL 1653.810.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)184891573786134022Rat
12904673Cm127Cardiac mass QTL 1270.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)182682218671822186Rat
12904675Am19Aortic mass QTL 190.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)182682218671822186Rat
70185BpQTLcluster15Blood pressure QTL cluster 154.61arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)185384517561982387Rat
1331774Bp226Blood pressure QTL 2264.41065arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183161050577371277Rat
9589816Gluco68Glucose level QTL 687.250.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)183199089176990891Rat
1331770Bp234Blood pressure QTL 2343.807arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)184562030686134022Rat
61360EaeyExperimental allergic encephalomyelitis QTL y3nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis duration (CMO:0001424)184918722662647720Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181206648285493247Rat
2303120Mamtr8Mammary tumor resistance QTL 80.001mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)183161050585493247Rat
12880368Bw187Body weight QTL 1870.045body mass (VT:0001259)body weight (CMO:0000012)183337915878379158Rat
61367Iddm4Insulin dependent diabetes mellitus QTL 42.330.0074blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)184046238385462383Rat
1359020Ppulsi2Prepulse inhibition QTL 22.71prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)185449080176272247Rat
9590318Scort22Serum corticosterone level QTL 227.640.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)183199089176990891Rat
1331752Bw27Body weight QTL 272.963body mass (VT:0001259)body weight (CMO:0000012)185449080168120379Rat
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181206648285493247Rat
1331754Bp230Blood pressure QTL 2304.61609arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181564228086134022Rat
12904069Cm123Cardiac mass QTL 1230.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)183337915878379158Rat
1331798Bp224Blood pressure QTL 2243.53873arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183161050577371277Rat
12904070Cm124Cardiac mass QTL 1240.01heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)183337915878379158Rat
12904071Am18Aortic mass QTL 180.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)183337915878379158Rat
2303584Gluco55Glucose level QTL 552blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)185079521286134022Rat
2301413Bp318Blood pressure QTL 3180.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182682218671822186Rat
61383Bp47Blood pressure QTL 4717.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)183152278376522783Rat
12904067Cm122Cardiac mass QTL 1220.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)183337915878379158Rat
2301417Bp319Blood pressure QTL 3190.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183337915878379158Rat
1331806Bp229Blood pressure QTL 2294.36484arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)184891705460064728Rat
12904073Kidm71Kidney mass QTL 710.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)183337915878379158Rat
1331780Bp238Blood pressure QTL 2383.269arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)184891705460064728Rat
1331776Bp225Blood pressure QTL 2252.829arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)183161050577371277Rat
631518Bw11Body weight QTL 112.8body mass (VT:0001259)body weight (CMO:0000012)183612162681121626Rat
1641923Colcr8Colorectal carcinoma resistance QTL 83.10.0014intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)183199089176990891Rat
8694366Abfw8Abdominal fat weight QTL 86.380.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)184891573786134022Rat
631509Sald2Serum aldosterone level QTL 22.9blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)182641582171415821Rat
631274Sprol1Serum protein level QTL 15.3blood total protein amount (VT:0005567)serum total protein level (CMO:0000661)183164450879484311Rat
1598832Glom11Glomerulus QTL 112.9kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)185326667186134022Rat
1600373Mamtr6Mammary tumor resistance QTL 6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)181955353285493247Rat
2293708Bss46Bone structure and strength QTL 468.80.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)181206648257066482Rat
8694378Bw157Body weight QTL 1573.590.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)183199089176990891Rat
2303571Bw92Body weight QTL 923body mass (VT:0001259)body weight (CMO:0000012)185079521286134022Rat
61429Cia17Collagen induced arthritis QTL 174.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)183161050572538878Rat
7411719Strs5Sensitivity to stroke QTL 59.4cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)185219805968120379Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 162 91 90 59 92 59 6 356 192 11 141 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000025934   ⟹   ENSRNOP00000025934
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1856,319,828 - 56,353,306 (-)Ensembl
mRatBN7.2 Ensembl1854,049,397 - 54,101,463 (-)Ensembl
Rnor_6.0 Ensembl1855,865,467 - 55,916,220 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000025989   ⟹   ENSRNOP00000025989
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1854,026,152 - 54,046,166 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000064686   ⟹   ENSRNOP00000061109
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1856,326,369 - 56,347,359 (-)Ensembl
mRatBN7.2 Ensembl1854,055,938 - 54,076,930 (-)Ensembl
Rnor_6.0 Ensembl1855,870,720 - 55,891,710 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000093773   ⟹   ENSRNOP00000094210
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1856,319,571 - 56,337,250 (-)Ensembl
mRatBN7.2 Ensembl1854,048,663 - 54,066,844 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000102376   ⟹   ENSRNOP00000077576
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1856,319,571 - 56,353,306 (-)Ensembl
mRatBN7.2 Ensembl1854,055,659 - 54,102,126 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000103982   ⟹   ENSRNOP00000087286
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1854,026,152 - 54,101,463 (-)Ensembl
RefSeq Acc Id: NM_021695   ⟹   NP_067727
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81856,326,369 - 56,347,359 (-)NCBI
mRatBN7.21854,055,938 - 54,076,930 (-)NCBI
Rnor_6.01855,870,720 - 55,891,710 (-)NCBI
Rnor_5.01855,096,559 - 55,154,838 (-)NCBI
RGSC_v3.41856,552,991 - 56,573,981 (-)RGD
Celera1852,210,523 - 52,231,513 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_067727 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAA34925 (Get FASTA)   NCBI Sequence Viewer  
  CAQ37745 (Get FASTA)   NCBI Sequence Viewer  
  EDM14552 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000061109
  ENSRNOP00000061109.1
  ENSRNOP00000077576.1
  ENSRNOP00000087286.1
GenBank Protein Q9Z327 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_067727   ⟸   NM_021695
- UniProtKB: A6IXC1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000025934   ⟸   ENSRNOT00000025934
Ensembl Acc Id: ENSRNOP00000061109   ⟸   ENSRNOT00000064686
Ensembl Acc Id: ENSRNOP00000087286   ⟸   ENSRNOT00000103982
Ensembl Acc Id: ENSRNOP00000025989   ⟸   ENSRNOT00000025989
Ensembl Acc Id: ENSRNOP00000094210   ⟸   ENSRNOT00000093773
Ensembl Acc Id: ENSRNOP00000077576   ⟸   ENSRNOT00000102376

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9Z327-F1-model_v2 AlphaFold Q9Z327 1-931 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13700804
Promoter ID:EPDNEW_R11328
Type:initiation region
Name:Synpo_2
Description:synaptopodin
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11329  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01855,891,583 - 55,891,643EPDNEW
RGD ID:13700811
Promoter ID:EPDNEW_R11329
Type:multiple initiation site
Name:Synpo_1
Description:synaptopodin
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11328  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01855,916,185 - 55,916,245EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620668 AgrOrtholog
BioCyc Gene G2FUF-7361 BioCyc
Ensembl Genes ENSRNOG00000019181 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000064686 ENTREZGENE
  ENSRNOT00000064686.2 UniProtKB/Swiss-Prot
  ENSRNOT00000102376.1 UniProtKB/Swiss-Prot
  ENSRNOT00000103982.1 UniProtKB/Swiss-Prot
InterPro Synaptopodin_domain UniProtKB/Swiss-Prot
KEGG Report rno:60324 UniProtKB/Swiss-Prot
NCBI Gene 60324 ENTREZGENE
PANTHER PTHR24217:SF13 UniProtKB/Swiss-Prot
  PUTATIVE-RELATED UniProtKB/Swiss-Prot
PhenoGen Synpo PhenoGen
RatGTEx ENSRNOG00000019181 RatGTEx
UniProt A0A0H2UHQ9_RAT UniProtKB/TrEMBL
  A0A8I6AKF5_RAT UniProtKB/TrEMBL
  A6IXC1 ENTREZGENE, UniProtKB/TrEMBL
  B1VKB4_RAT UniProtKB/TrEMBL
  Q9Z327 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-02-26 Synpo  synaptopodin      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Synpo  synaptopodin      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression increased mRNA expression occurs in hippocampal granule cells after the induction of long-term potentiation 634104