Rph3a (rabphilin 3A) - Rat Genome Database

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Gene: Rph3a (rabphilin 3A) Rattus norvegicus
Analyze
Symbol: Rph3a
Name: rabphilin 3A
RGD ID: 620073
Description: Enables several functions, including anion binding activity; calcium-dependent phospholipid binding activity; and metal ion binding activity. Involved in dendritic spine organization. Located in dendritic spine; postsynaptic membrane; and secretory vesicle. Is extrinsic component of membrane. Part of protein-containing complex. Is active in cholinergic synapse and neuromuscular junction. Is extrinsic component of synaptic vesicle membrane. Orthologous to human RPH3A (rabphilin 3A); INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: exophilin-1; rabphilin 3A homolog; rabphilin 3A homolog (mouse); rabphilin-3A
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: Rph3aTn(sb-T2/Bart3)2.104Mcwi  
Genetic Models: F344-Rph3aTn(sb-T2/Bart3)2.104Mcwi
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81241,203,004 - 41,279,536 (+)NCBIGRCr8
mRatBN7.21235,542,389 - 35,618,901 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1235,542,728 - 35,617,592 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1236,721,473 - 36,796,064 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01237,332,667 - 37,407,266 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01236,385,126 - 36,459,717 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01241,073,296 - 41,149,799 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1241,073,824 - 41,148,490 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01242,938,832 - 43,014,142 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41236,678,613 - 36,753,316 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11236,542,000 - 36,616,704 (+)NCBI
Celera1237,205,019 - 37,281,023 (+)NCBICelera
Cytogenetic Map12q16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

References - curated
# Reference Title Reference Citation
1. Structural determinants for Ca2+ and phosphatidylinositol 4,5-bisphosphate binding by the C2A domain of rabphilin-3A. Coudevylle N, etal., J Biol Chem. 2008 Dec 19;283(51):35918-28. Epub 2008 Oct 21.
2. Rabphilin regulates SNARE-dependent re-priming of synaptic vesicles for fusion. Deak F, etal., EMBO J. 2006 Jun 21;25(12):2856-66. Epub 2006 Jun 8.
3. Developmental regulation and specific brain distribution of phosphorabphilin. Foletti DL and Scheller RH, J Neurosci. 2001 Aug 1;21(15):5461-72.
4. 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.
5. The Rab27 effector Rabphilin, unlike Granuphilin and Noc2, rapidly exchanges between secretory granules and cytosol in PC12 cells. Handley MT and Burgoyne RD, Biochem Biophys Res Commun. 2008 Aug 22;373(2):275-81. Epub 2008 Jun 23.
6. Identification of a rabphilin-3A-interacting protein as GTP cyclohydrolase I in PC12 cells. Imazumi K, etal., Biochem Biophys Res Commun. 1994 Dec 15;205(2):1409-16.
7. Synaptic targeting of rabphilin-3A, a synaptic vesicle Ca2+/phospholipid-binding protein, depends on rab3A/3C. Li C, etal., Neuron 1994 Oct;13(4):885-98.
8. Characterization of rabphilin phosphorylation using phospho-specific antibodies. Lonart G and Sudhof TC, Neuropharmacology. 2001 Nov;41(6):643-9.
9. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
10. Localization of Rabphilin-3A on the synaptic vesicle. Mizoguchi A, etal., Biochem Biophys Res Commun. 1994 Aug 15;202(3):1235-43. doi: 10.1006/bbrc.1994.2063.
11. The C2A-C2B linker defines the high affinity Ca(2+) binding mode of rabphilin-3A. Montaville P, etal., J Biol Chem. 2007 Feb 16;282(7):5015-25. Epub 2006 Dec 13.
12. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
13. Structural basis of Rab effector specificity: crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A. Ostermeier C and Brunger AT, Cell. 1999 Feb 5;96(3):363-74.
14. GOA pipeline RGD automated data pipeline
15. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
16. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
17. Rab3 reversibly recruits rabphilin to synaptic vesicles by a mechanism analogous to raf recruitment by ras. Stahl B, etal., EMBO J. 1996 Apr 15;15(8):1799-809.
18. Rabphilin 3A retains NMDA receptors at synaptic sites through interaction with GluN2A/PSD-95 complex. Stanic J, etal., Nat Commun. 2015 Dec 18;6:10181. doi: 10.1038/ncomms10181.
19. Molecular anatomy of a trafficking organelle. Takamori S, etal., Cell. 2006 Nov 17;127(4):831-46.
20. Novel localization of Rab3D in rat intestinal goblet cells and Brunner's gland acinar cells suggests a role in early Golgi trafficking. Valentijn JA, etal., Am J Physiol Gastrointest Liver Physiol. 2007 Jul;293(1):G165-77. Epub 2007 Mar 29.
21. Identification of a novel protein complex containing annexin A4, rabphilin and synaptotagmin. Willshaw A, etal., FEBS Lett. 2004 Feb 13;559(1-3):13-21.
Additional References at PubMed
PMID:8943213   PMID:12937130   PMID:14722103   PMID:16043482   PMID:16790935   PMID:17156129   PMID:18434502   PMID:18986604   PMID:19292454   PMID:21521611   PMID:28823933   PMID:29476059  
PMID:30053369   PMID:32357304   PMID:35626653   PMID:36173100  


Genomics

Comparative Map Data
Rph3a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81241,203,004 - 41,279,536 (+)NCBIGRCr8
mRatBN7.21235,542,389 - 35,618,901 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1235,542,728 - 35,617,592 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1236,721,473 - 36,796,064 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01237,332,667 - 37,407,266 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01236,385,126 - 36,459,717 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01241,073,296 - 41,149,799 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1241,073,824 - 41,148,490 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01242,938,832 - 43,014,142 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41236,678,613 - 36,753,316 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11236,542,000 - 36,616,704 (+)NCBI
Celera1237,205,019 - 37,281,023 (+)NCBICelera
Cytogenetic Map12q16NCBI
RPH3A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3812112,575,236 - 112,898,881 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl12112,570,380 - 112,898,881 (+)EnsemblGRCh38hg38GRCh38
GRCh3712113,013,040 - 113,336,686 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3612111,714,125 - 111,819,631 (+)NCBINCBI36Build 36hg18NCBI36
Build 3412111,692,461 - 111,797,964NCBI
Celera12112,856,609 - 112,963,778 (+)NCBICelera
Cytogenetic Map12q24.13NCBI
HuRef12110,241,984 - 110,349,225 (+)NCBIHuRef
CHM1_112113,197,984 - 113,305,112 (+)NCBICHM1_1
T2T-CHM13v2.012112,552,138 - 112,875,587 (+)NCBIT2T-CHM13v2.0
Rph3a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395121,078,562 - 121,184,249 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5121,078,562 - 121,148,155 (-)EnsemblGRCm39 Ensembl
GRCm385120,940,499 - 121,010,116 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5120,940,499 - 121,010,092 (-)EnsemblGRCm38mm10GRCm38
MGSCv375121,390,508 - 121,459,527 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365121,201,116 - 121,270,135 (-)NCBIMGSCv36mm8
Celera5118,026,782 - 118,095,964 (-)NCBICelera
Cytogenetic Map5FNCBI
cM Map561.17NCBI
Rph3a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554829,225,845 - 9,312,695 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554829,190,137 - 9,312,596 (+)NCBIChiLan1.0ChiLan1.0
RPH3A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v210120,667,296 - 120,988,275 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan112120,663,693 - 120,984,671 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v012110,393,495 - 110,504,099 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.112113,766,871 - 113,888,805 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl12113,815,437 - 113,886,701 (+)Ensemblpanpan1.1panPan2
RPH3A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12610,147,910 - 10,379,742 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2610,280,850 - 10,378,061 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2610,232,289 - 10,497,349 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02610,490,689 - 10,619,145 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2610,405,323 - 10,619,145 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12610,327,807 - 10,592,901 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02610,527,647 - 10,656,100 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02610,439,243 - 10,704,531 (+)NCBIUU_Cfam_GSD_1.0
Rph3a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118148,328,663 - 148,413,066 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366682,857,732 - 2,911,517 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366682,827,574 - 2,911,955 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RPH3A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1438,867,099 - 38,969,169 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11438,867,095 - 39,162,052 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21441,316,538 - 41,482,994 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RPH3A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.111107,818,594 - 108,155,546 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl11108,077,043 - 108,155,539 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037136,930,533 - 137,267,850 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rph3a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474719,441,226 - 19,495,798 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474719,439,365 - 19,657,865 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Rph3a
410 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:49
Count of miRNA genes:49
Interacting mature miRNAs:49
Transcripts:ENSRNOT00000001844
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7411660Foco28Food consumption QTL 2810.90.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
9590086Insglur6Insulin/glucose ratio QTL 618.970.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)12142110980Rat
8694179Bw150Body weight QTL 1502.90.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
7411586Foco5Food consumption QTL 55.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411595Foco9Food consumption QTL 940.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411545Bw128Body weight QTL 1285.20.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
9590147Scort7Serum corticosterone level QTL 713.610.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)12142110980Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)12142450532Rat
737979Pia22Pristane induced arthritis QTL 2253.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12144465750Rat
634351Apr5Acute phase response QTL 56.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)12144503507Rat
2302042Pia38Pristane induced arthritis QTL 383.50.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)12144503507Rat
634350Apr4Acute phase response QTL 46orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)12117200546172005Rat
8552918Pigfal7Plasma insulin-like growth factor 1 level QTL 7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)6556449546669029Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
8552964Pigfal17Plasma insulin-like growth factor 1 level QTL 173.5blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
8552912Pigfal6Plasma insulin-like growth factor 1 level QTL 65blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449846669029Rat
10059594Kidm46Kidney mass QTL 463.790.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)12610757946669029Rat
1302792Scl21Serum cholesterol level QTL 213.80.0011blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)12719673046669029Rat
1549829Scl48Serum cholesterol level QTL 485blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)12960327746669029Rat
2293699Bss49Bone structure and strength QTL 495.610.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)121047413746669029Rat
2300186Bmd59Bone mineral density QTL 597.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)121047413746669029Rat
1331761Bp218Blood pressure QTL 2182.973arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121107382545055165Rat
61404Bw120Body weight QTL 1205.1body mass (VT:0001259)body mass index (BMI) (CMO:0000105)121235161946669029Rat
1641928Alcrsp5Alcohol response QTL 5response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)121281238546669029Rat
2303569Gluco44Glucose level QTL 442blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121281238546669029Rat
1549902Bp269Blood pressure QTL 269arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121318273646669029Rat
1549912Bp268Blood pressure QTL 268arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)101318273646669029Rat
2302060Pia37Pristane induced arthritis QTL 376.10.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)121319815746669029Rat
61421Cia12Collagen induced arthritis QTL 124.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)121363552335682913Rat
631543Bp83Blood pressure QTL 835.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121555082638478808Rat
631560Apr1Acute phase response QTL 16.1orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)121914436246669029Rat
737822Alc10Alcohol consumption QTL 102.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)121961087040218516Rat
5684888Pia42Pristane induced arthritis QTL 42joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)121961087042828880Rat
61324Eae5Experimental allergic encephalomyelitis QTL 514nervous system integrity trait (VT:0010566)percentage of study population developing relapsing-remitting experimental autoimmune encephalomyelitis during a period of time (CMO:0001402)121961087046669029Rat
1298081Cia25Collagen induced arthritis QTL 254.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)121961088935682913Rat
70213Niddm27Non-insulin dependent diabetes mellitus QTL 273.72blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121983578938193007Rat
7411643Foco20Food consumption QTL 200.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)122032881946669029Rat
70169Eae13Experimental allergic encephalomyelitis QTL 130.032nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)122413920236638073Rat
1556747Calcic1Intracellular calcium level QTL 13.6platelet calcium amount (VT:0010500)platelet intracellular calcium level (CMO:0000922)122806443340130419Rat
1300175Cm5Cardiac mass QTL 53.78heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)122806443345899022Rat
1600386Calcic2Intracellular calcium level QTL 20.001platelet physiology trait (VT:0005464)platelet intracellular calcium level (CMO:0000922)122806443346669029Rat
1331787Rf41Renal function QTL 412.998kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)122806455740218380Rat
631829Alc6Alcohol consumption QTL 64.7consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)122860752637691617Rat
1300162Bp188Blood pressure QTL 1883.19arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)123210317445899022Rat

Markers in Region
D12Got81  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21235,555,366 - 35,555,558 (+)MAPPERmRatBN7.2
Rnor_6.01241,086,270 - 41,086,461NCBIRnor6.0
Rnor_5.01242,951,800 - 42,951,991UniSTSRnor5.0
RGSC_v3.41236,691,083 - 36,691,275RGDRGSC3.4
RGSC_v3.41236,691,084 - 36,691,275UniSTSRGSC3.4
RGSC_v3.11236,554,472 - 36,554,663RGD
Celera1237,218,170 - 37,218,363UniSTS
RH 3.4 Map12617.9UniSTS
RH 3.4 Map12617.9RGD
Cytogenetic Map12q16UniSTS


Genetic Models
This gene Rph3a is modified in the following models/strains:


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 54 2
Low 8 1 1 14 22 1 1
Below cutoff 19 22 17 12 17 5 5 4 4 15 3 5

Sequence


RefSeq Acc Id: ENSRNOT00000001844   ⟹   ENSRNOP00000001844
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1235,542,728 - 35,617,592 (+)Ensembl
Rnor_6.0 Ensembl1241,073,824 - 41,148,490 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000106706   ⟹   ENSRNOP00000086545
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1235,542,728 - 35,617,592 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000119612   ⟹   ENSRNOP00000092026
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1235,569,862 - 35,617,592 (+)Ensembl
RefSeq Acc Id: NM_133518   ⟹   NP_598202
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81241,203,562 - 41,278,227 (+)NCBI
mRatBN7.21235,542,919 - 35,617,592 (+)NCBI
Rnor_6.01241,073,824 - 41,148,490 (+)NCBI
Rnor_5.01242,938,832 - 43,014,142 (+)NCBI
RGSC_v3.41236,678,613 - 36,753,316 (+)RGD
Celera1237,205,019 - 37,281,023 (+)RGD
Sequence:
RefSeq Acc Id: XM_006249379   ⟹   XP_006249441
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81241,203,004 - 41,279,536 (+)NCBI
mRatBN7.21235,542,389 - 35,618,901 (+)NCBI
Rnor_6.01241,073,296 - 41,149,799 (+)NCBI
Rnor_5.01242,938,832 - 43,014,142 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006249380   ⟹   XP_006249442
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81241,203,358 - 41,279,536 (+)NCBI
mRatBN7.21235,542,716 - 35,618,901 (+)NCBI
Rnor_6.01241,073,551 - 41,149,799 (+)NCBI
Rnor_5.01242,938,832 - 43,014,142 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006249381   ⟹   XP_006249443
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81241,203,357 - 41,279,536 (+)NCBI
mRatBN7.21235,542,715 - 35,618,901 (+)NCBI
Rnor_6.01241,073,551 - 41,149,799 (+)NCBI
Rnor_5.01242,938,832 - 43,014,142 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039089038   ⟹   XP_038944966
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81241,203,358 - 41,279,536 (+)NCBI
mRatBN7.21235,542,711 - 35,618,901 (+)NCBI
RefSeq Acc Id: XM_039089039   ⟹   XP_038944967
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81241,203,357 - 41,279,536 (+)NCBI
mRatBN7.21235,542,715 - 35,618,901 (+)NCBI
RefSeq Acc Id: NP_598202   ⟸   NM_133518
- UniProtKB: P47709 (UniProtKB/Swiss-Prot),   F1LPB9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006249441   ⟸   XM_006249379
- Peptide Label: isoform X1
- UniProtKB: P47709 (UniProtKB/Swiss-Prot),   F1LPB9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006249443   ⟸   XM_006249381
- Peptide Label: isoform X4
- UniProtKB: P47709 (UniProtKB/Swiss-Prot),   A0A8I6A3Z9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006249442   ⟸   XM_006249380
- Peptide Label: isoform X2
- UniProtKB: P47709 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000001844   ⟸   ENSRNOT00000001844
RefSeq Acc Id: XP_038944966   ⟸   XM_039089038
- Peptide Label: isoform X3
- UniProtKB: P47709 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_038944967   ⟸   XM_039089039
- Peptide Label: isoform X5
- UniProtKB: P47709 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: ENSRNOP00000092026   ⟸   ENSRNOT00000119612
RefSeq Acc Id: ENSRNOP00000086545   ⟸   ENSRNOT00000106706
Protein Domains
C2   FYVE-type   RabBD

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P47709-F1-model_v2 AlphaFold P47709 1-684 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620073 AgrOrtholog
BioCyc Gene G2FUF-19199 BioCyc
Ensembl Genes ENSRNOG00000001368 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000001844 ENTREZGENE
  ENSRNOT00000001844.7 UniProtKB/TrEMBL
  ENSRNOT00000106706.1 UniProtKB/TrEMBL
  ENSRNOT00000119612.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.150 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.30.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro C2_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C2_domain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FYVE_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Rab_BD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Rabphilin/DOC2/Noc2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Rabphilin_Doc2_C2A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RPH3A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Synaptotagmin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_FYVE-rel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_FYVE_PHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:171039 UniProtKB/Swiss-Prot
NCBI Gene 171039 ENTREZGENE
PANTHER PTHR45729 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR45729:SF3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RAB EFFECTOR NOC2 UniProtKB/TrEMBL
Pfam FYVE_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PF00168 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Rph3a PhenoGen
PRINTS C2DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SYNAPTOTAGMN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE PS50004 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RABBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZF_FYVE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000001368 RatGTEx
SMART SM00239 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49562 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF57903 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6A3Z9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AER8_RAT UniProtKB/TrEMBL
  A6J1G4_RAT UniProtKB/TrEMBL
  A6J1G6_RAT UniProtKB/TrEMBL
  F1LPB9 ENTREZGENE, UniProtKB/TrEMBL
  P47709 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-22 Rph3a  rabphilin 3A  Rph3a  rabphilin 3A homolog (mouse)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Rph3a  rabphilin 3A homolog (mouse)    rabphilin 3A  Name updated 1299863 APPROVED
2002-08-07 Rph3a  rabphilin 3A      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to the synaptic vesicle membrane 729719
gene_physical_interaction displays GTP-dependent interaction with rab3A 729719