Synj1 (synaptojanin 1) - Rat Genome Database

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Gene: Synj1 (synaptojanin 1) Rattus norvegicus
Analyze
Symbol: Synj1
Name: synaptojanin 1
RGD ID: 69434
Description: Enables phosphatase activity and protein domain specific binding activity. Involved in several processes, including positive regulation of gliogenesis; positive regulation of receptor-mediated endocytosis; and response to retinoic acid. Located in synaptic membrane. Part of clathrin coat of coated pit. Is active in parallel fiber to Purkinje cell synapse and presynapse. Colocalizes with microtubule. Human ortholog(s) of this gene implicated in Parkinson's disease; Parkinson's disease 20; and developmental and epileptic encephalopathy 53. Orthologous to human SYNJ1 (synaptojanin 1); PARTICIPATES IN altered clathrin-dependent synaptic vesicle endocytosis; clathrin-dependent synaptic vesicle endocytosis; ephrin - ephrin receptor bidirectional signaling axis; INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: synaptic inositol 1,4,5-trisphosphate 5-phosphatase 1; synaptic inositol-1,4,5-trisphosphate 5-phosphatase 1; synaptojanin-1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21130,192,629 - 30,269,447 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1130,192,629 - 30,269,220 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1138,879,383 - 38,956,048 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01131,550,808 - 31,627,473 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01130,725,282 - 30,801,896 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01131,105,784 - 31,181,573 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1131,104,787 - 31,180,642 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01134,717,258 - 34,792,366 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41130,921,834 - 30,998,609 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11130,921,975 - 30,966,053 (-)NCBI
Celera1129,860,879 - 29,935,097 (-)NCBICelera
Cytogenetic Map11q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

References

References - curated
# Reference Title Reference Citation
1. MNB/DYRK1A phosphorylation regulates the interactions of synaptojanin 1 with endocytic accessory proteins. Adayev T, etal., Biochem Biophys Res Commun. 2006 Dec 29;351(4):1060-5. doi: 10.1016/j.bbrc.2006.10.169. Epub 2006 Nov 7.
2. The Abl/Arg substrate ArgBP2/nArgBP2 coordinates the function of multiple regulatory mechanisms converging on the actin cytoskeleton. Cestra G, etal., Proc Natl Acad Sci U S A. 2005 Feb 1;102(5):1731-6. Epub 2005 Jan 19.
3. Identification of the major synaptojanin-binding proteins in brain. de Heuvel E, etal., J Biol Chem. 1997 Mar 28;272(13):8710-6.
4. Synaptojanin 1 mutation in Parkinson's disease brings further insight into the neuropathological mechanisms. Drouet V and Lesage S, Biomed Res Int. 2014;2014:289728. doi: 10.1155/2014/289728. Epub 2014 Sep 16.
5. 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.
6. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
7. Synaptojanin 1: localization on coated endocytic intermediates in nerve terminals and interaction of its 170 kDa isoform with Eps15. Haffner C, etal., FEBS Lett. 1997 Dec 15;419(2-3):175-80.
8. Synaptojanin-1 plays a key role in astrogliogenesis: possible relevance for Down's syndrome. Herrera F, etal., Cell Death Differ. 2009 Jun;16(6):910-20. Epub 2009 Mar 13.
9. Impaired intracellular trafficking defines early Parkinson's disease. Hunn BH, etal., Trends Neurosci. 2015 Mar;38(3):178-88. doi: 10.1016/j.tins.2014.12.009. Epub 2015 Jan 29.
10. EphrinB-EphB signalling regulates clathrin-mediated endocytosis through tyrosine phosphorylation of synaptojanin 1. Irie F, etal., Nat Cell Biol. 2005 May;7(5):501-9. Epub 2005 Apr 10.
11. Myosin 1E interacts with synaptojanin-1 and dynamin and is involved in endocytosis. Krendel M, etal., FEBS Lett. 2007 Feb 20;581(4):644-50. Epub 2007 Jan 18.
12. Localization of mRNAs for synaptojanin isoforms in the brain of developing and mature rats. Kudo M, etal., Brain Res Mol Brain Res. 1999 Feb 5;64(2):179-85.
13. Regulation of synaptojanin 1 by cyclin-dependent kinase 5 at synapses. Lee SY, etal., Proc Natl Acad Sci U S A. 2004 Jan 13;101(2):546-51. Epub 2004 Jan 2.
14. p145, a major Grb2-binding protein in brain, is co-localized with dynamin in nerve terminals where it undergoes activity-dependent dephosphorylation. McPherson PS, etal., J Biol Chem. 1994 Dec 2;269(48):30132-9.
15. A presynaptic inositol-5-phosphatase. McPherson PS, etal., Nature 1996 Jan 25;379(6563):353-7.
16. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
17. Synaptojanin forms two separate complexes in the nerve terminal. Interactions with endophilin and amphiphysin. Micheva KD, etal., J Biol Chem. 1997 Oct 24;272(43):27239-45. doi: 10.1074/jbc.272.43.27239.
18. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
19. Identification and characterization of a synaptojanin 2 splice isoform predominantly expressed in nerve terminals. Nemoto Y, etal., J Biol Chem 2001 Nov 2;276(44):41133-42.
20. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
21. SNX18 shares a redundant role with SNX9 and modulates endocytic trafficking at the plasma membrane. Park J, etal., J Cell Sci. 2010 May 15;123(Pt 10):1742-50. doi: 10.1242/jcs.064170. Epub 2010 Apr 27.
22. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
23. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
24. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
25. Syndapin I, a synaptic dynamin-binding protein that associates with the neural Wiskott-Aldrich syndrome protein. Qualmann B, etal., Mol Biol Cell 1999 Feb;10(2):501-13.
26. Tissue-specific alternative splicing generates two synaptojanin isoforms with differential membrane binding properties. Ramjaun AR and McPherson PS, J Biol Chem. 1996 Oct 4;271(40):24856-61. doi: 10.1074/jbc.271.40.24856.
27. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
28. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
29. Differential expression of endophilin 1 and 2 dimers at central nervous system synapses. Ringstad N, etal., J Biol Chem. 2001 Nov 2;276(44):40424-30. doi: 10.1074/jbc.M106338200. Epub 2001 Aug 22.
30. The SH3p4/Sh3p8/SH3p13 protein family: binding partners for synaptojanin and dynamin via a Grb2-like Src homology 3 domain. Ringstad N, etal., Proc Natl Acad Sci U S A 1997 Aug 5;94(16):8569-74.
31. Synaptic vesicle endocytosis. Saheki Y and De Camilli P, Cold Spring Harb Perspect Biol. 2012 Sep 1;4(9):a005645. doi: 10.1101/cshperspect.a005645.
32. The interaction between EEN and Abi-1, two MLL fusion partners, and synaptojanin and dynamin: implications for leukaemogenesis. So CW, etal., Leukemia. 2000 Apr;14(4):594-601.
33. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
34. Characterization and purification of phosphatidylinositol trisphosphate 5-phosphatase from rat brain tissues. Woscholski R Methods Enzymol 2002;345:335-45.
35. Identification and characterisation of a novel splice variant of synaptojanin1. Woscholski R, etal., FEBS Lett 1998 Jul 31;432(1-2):5-8.
Additional References at PubMed
PMID:9195986   PMID:9694653   PMID:9813051   PMID:10535736   PMID:11879655   PMID:12481038   PMID:12606338   PMID:17762867   PMID:18093523   PMID:18591654   PMID:18987319   PMID:20448150  
PMID:22099461   PMID:22511594   PMID:22871113   PMID:29476059   PMID:30053369   PMID:32357304  


Genomics

Comparative Map Data
Synj1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21130,192,629 - 30,269,447 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1130,192,629 - 30,269,220 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1138,879,383 - 38,956,048 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01131,550,808 - 31,627,473 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01130,725,282 - 30,801,896 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01131,105,784 - 31,181,573 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1131,104,787 - 31,180,642 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01134,717,258 - 34,792,366 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41130,921,834 - 30,998,609 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11130,921,975 - 30,966,053 (-)NCBI
Celera1129,860,879 - 29,935,097 (-)NCBICelera
Cytogenetic Map11q11NCBI
SYNJ1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382132,628,759 - 32,728,394 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2132,628,759 - 32,728,040 (-)EnsemblGRCh38hg38GRCh38
GRCh372134,001,069 - 34,100,351 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362132,922,944 - 33,022,148 (-)NCBINCBI36Build 36hg18NCBI36
Build 342132,922,943 - 33,022,105NCBI
Celera2119,184,699 - 19,284,009 (-)NCBICelera
Cytogenetic Map21q22.11NCBI
HuRef2119,410,440 - 19,509,720 (-)NCBIHuRef
CHM1_12133,562,725 - 33,661,992 (-)NCBICHM1_1
T2T-CHM13v2.02130,994,760 - 31,094,413 (-)NCBIT2T-CHM13v2.0
Synj1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391690,732,980 - 90,810,543 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1690,732,980 - 90,808,196 (-)EnsemblGRCm39 Ensembl
GRCm381690,936,092 - 91,013,727 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1690,936,092 - 91,011,308 (-)EnsemblGRCm38mm10GRCm38
MGSCv371690,936,342 - 91,011,553 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361690,824,951 - 90,900,361 (-)NCBIMGSCv36mm8
Celera1692,017,943 - 92,093,156 (-)NCBICelera
Cytogenetic Map16C3.3NCBI
cM Map1652.18NCBI
Synj1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540732,093,479 - 32,175,795 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540732,094,076 - 32,175,676 (-)NCBIChiLan1.0ChiLan1.0
SYNJ1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan12123,600,937 - 23,700,710 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02118,990,526 - 19,088,839 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12132,368,949 - 32,466,994 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2132,368,949 - 32,466,994 (-)Ensemblpanpan1.1panPan2
SYNJ1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13127,308,169 - 27,399,226 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3127,308,169 - 27,399,197 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3127,301,124 - 27,392,150 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03127,428,088 - 27,497,209 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3127,428,088 - 27,596,918 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13127,372,989 - 27,463,773 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03127,384,757 - 27,475,496 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03127,892,120 - 27,983,140 (-)NCBIUU_Cfam_GSD_1.0
Synj1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497127,901,843 - 27,983,289 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365009,484,586 - 9,566,100 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049365009,484,571 - 9,565,980 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SYNJ1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13196,230,104 - 196,330,384 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113196,230,101 - 196,330,512 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213206,240,582 - 206,342,113 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SYNJ1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1259,421,561 - 59,523,076 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl259,422,110 - 59,523,176 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660711,959,498 - 2,063,300 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Synj1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474520,881,317 - 20,984,184 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474520,881,312 - 20,984,242 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Synj1
156 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:559
Count of miRNA genes:206
Interacting mature miRNAs:256
Transcripts:ENSRNOT00000002812, ENSRNOT00000052033, ENSRNOT00000065535
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598842Glom10Glomerulus QTL 103.4kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)11135331169Rat
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11843667453436674Rat
724517Uae18Urinary albumin excretion QTL 183.7urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)111647204744285911Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112295940367959403Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112328045668280456Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112328045668280456Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
1300130Rf20Renal function QTL 204.44kidney glomerulus integrity trait (VT:0010546)kidney glomerulus diameter (CMO:0001166)112952841860324829Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat

Markers in Region
D11Rat98  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21130,223,187 - 30,223,321 (+)MAPPERmRatBN7.2
Rnor_6.01131,135,608 - 31,135,741NCBIRnor6.0
Rnor_5.01134,746,400 - 34,746,533UniSTSRnor5.0
RGSC_v3.41130,952,088 - 30,952,222RGDRGSC3.4
RGSC_v3.41130,952,089 - 30,952,222UniSTSRGSC3.4
RGSC_v3.11130,951,995 - 30,952,129RGD
Celera1129,890,048 - 29,890,179UniSTS
SHRSP x BN Map118.2299RGD
SHRSP x BN Map118.2299UniSTS
Cytogenetic Map11q11UniSTS
RH127638  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21130,192,908 - 30,193,103 (+)MAPPERmRatBN7.2
Rnor_6.01131,105,092 - 31,105,286NCBIRnor6.0
Rnor_5.01134,716,566 - 34,716,760UniSTSRnor5.0
RGSC_v3.41130,921,142 - 30,921,336UniSTSRGSC3.4
Celera1129,860,187 - 29,860,381UniSTS
RH 3.4 Map11181.4UniSTS
Cytogenetic Map11q11UniSTS
RH143404  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21130,193,171 - 30,193,366 (+)MAPPERmRatBN7.2
Rnor_6.01131,105,355 - 31,105,549NCBIRnor6.0
Rnor_5.01134,716,829 - 34,717,023UniSTSRnor5.0
RGSC_v3.41130,921,405 - 30,921,599UniSTSRGSC3.4
Celera1129,860,450 - 29,860,644UniSTS
RH 3.4 Map11182.7UniSTS
Cytogenetic Map11q11UniSTS
REN82086  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21130,245,465 - 30,245,690 (+)MAPPERmRatBN7.2
Rnor_6.01131,157,885 - 31,158,109NCBIRnor6.0
Rnor_5.01134,768,677 - 34,768,901UniSTSRnor5.0
RGSC_v3.41130,974,366 - 30,974,590UniSTSRGSC3.4
Celera1129,912,321 - 29,912,545UniSTS
Cytogenetic Map11q11UniSTS


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

alimentary part of gastrointestinal system 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 3 12 28 12 19 12 72 23 29 11
Low 31 29 29 29 8 11 2 12 12 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001415050 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_053476 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088690 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088691 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088692 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088693 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088694 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088695 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088696 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088697 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088698 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088699 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088700 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088701 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088702 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088704 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088705 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039088706 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC094784 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC120732 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ006855 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473989 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214527 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230618 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232801 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000222 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U45479 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U91836 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000002812   ⟹   ENSRNOP00000002812
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1130,200,402 - 30,269,206 (-)Ensembl
Rnor_6.0 Ensembl1131,105,799 - 31,180,642 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000052033   ⟹   ENSRNOP00000045019
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1130,192,629 - 30,269,206 (-)Ensembl
Rnor_6.0 Ensembl1131,104,787 - 31,180,636 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000065535   ⟹   ENSRNOP00000060346
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1130,194,610 - 30,269,220 (-)Ensembl
Rnor_6.0 Ensembl1131,106,934 - 31,180,616 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000096546   ⟹   ENSRNOP00000092411
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1130,194,610 - 30,269,206 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000110151   ⟹   ENSRNOP00000087611
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1130,194,610 - 30,269,206 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113478   ⟹   ENSRNOP00000092530
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1130,194,610 - 30,269,206 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000114591   ⟹   ENSRNOP00000086242
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1130,194,610 - 30,269,206 (-)Ensembl
RefSeq Acc Id: NM_001415050   ⟹   NP_001401979
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21130,192,629 - 30,269,082 (-)NCBI
RefSeq Acc Id: NM_053476   ⟹   NP_445928
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21130,192,629 - 30,269,447 (-)NCBI
Rnor_6.01131,105,784 - 31,181,573 (-)NCBI
Rnor_5.01134,717,258 - 34,792,366 (-)NCBI
RGSC_v3.41130,921,834 - 30,998,609 (-)RGD
Celera1129,860,879 - 29,935,097 (-)RGD
Sequence:
RefSeq Acc Id: XM_039088690   ⟹   XP_038944618
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21130,192,629 - 30,269,277 (-)NCBI
RefSeq Acc Id: XM_039088691   ⟹   XP_038944619
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21130,192,629 - 30,269,277 (-)NCBI
RefSeq Acc Id: XM_039088692   ⟹   XP_038944620
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21130,192,629 - 30,269,277 (-)NCBI
RefSeq Acc Id: XM_039088693   ⟹   XP_038944621
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21130,192,629 - 30,269,277 (-)NCBI
RefSeq Acc Id: XM_039088694   ⟹   XP_038944622
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21130,192,629 - 30,269,277 (-)NCBI
RefSeq Acc Id: XM_039088695   ⟹   XP_038944623
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21130,192,629 - 30,269,277 (-)NCBI
RefSeq Acc Id: XM_039088696   ⟹   XP_038944624
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21130,192,629 - 30,269,276 (-)NCBI
RefSeq Acc Id: XM_039088697   ⟹   XP_038944625
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21130,192,629 - 30,269,276 (-)NCBI
RefSeq Acc Id: XM_039088698   ⟹   XP_038944626
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21130,195,121 - 30,269,277 (-)NCBI
RefSeq Acc Id: XM_039088699   ⟹   XP_038944627
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21130,195,405 - 30,269,277 (-)NCBI
RefSeq Acc Id: XM_039088700   ⟹   XP_038944628
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21130,196,149 - 30,269,277 (-)NCBI
RefSeq Acc Id: XM_039088701   ⟹   XP_038944629
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21130,195,405 - 30,269,277 (-)NCBI
RefSeq Acc Id: XM_039088702   ⟹   XP_038944630
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21130,196,978 - 30,269,277 (-)NCBI
RefSeq Acc Id: XM_039088704   ⟹   XP_038944632
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21130,192,629 - 30,269,277 (-)NCBI
RefSeq Acc Id: XM_039088705   ⟹   XP_038944633
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21130,195,121 - 30,269,276 (-)NCBI
RefSeq Acc Id: XM_039088706   ⟹   XP_038944634
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21130,192,629 - 30,234,785 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001401979 (Get FASTA)   NCBI Sequence Viewer  
  NP_445928 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944618 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944619 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944620 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944621 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944622 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944623 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944624 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944625 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944626 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944627 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944628 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944629 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944630 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944632 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944633 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944634 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB60525 (Get FASTA)   NCBI Sequence Viewer  
  AAO24807 (Get FASTA)   NCBI Sequence Viewer  
  CAA07267 (Get FASTA)   NCBI Sequence Viewer  
  EDM10700 (Get FASTA)   NCBI Sequence Viewer  
  EDM10701 (Get FASTA)   NCBI Sequence Viewer  
  EDM10702 (Get FASTA)   NCBI Sequence Viewer  
  EDM10703 (Get FASTA)   NCBI Sequence Viewer  
  EDM10704 (Get FASTA)   NCBI Sequence Viewer  
  Q62910 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_445928   ⟸   NM_053476
- Peptide Label: isoform 1
- UniProtKB: A6JLD7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000002812   ⟸   ENSRNOT00000002812
RefSeq Acc Id: ENSRNOP00000060346   ⟸   ENSRNOT00000065535
RefSeq Acc Id: ENSRNOP00000045019   ⟸   ENSRNOT00000052033
RefSeq Acc Id: XP_038944619   ⟸   XM_039088691
- Peptide Label: isoform X2
- UniProtKB: Q810Z8 (UniProtKB/Swiss-Prot),   Q62911 (UniProtKB/Swiss-Prot),   Q62910 (UniProtKB/Swiss-Prot),   O89092 (UniProtKB/Swiss-Prot),   A0A8L2QTB1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944632   ⟸   XM_039088704
- Peptide Label: isoform X11
- UniProtKB: D4ABN3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944620   ⟸   XM_039088692
- Peptide Label: isoform X3
- UniProtKB: Q810Z8 (UniProtKB/Swiss-Prot),   Q62911 (UniProtKB/Swiss-Prot),   Q62910 (UniProtKB/Swiss-Prot),   O89092 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_038944623   ⟸   XM_039088695
- Peptide Label: isoform X6
- UniProtKB: A0A8I6A4X9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944621   ⟸   XM_039088693
- Peptide Label: isoform X4
- UniProtKB: A0A8I6AFG5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944622   ⟸   XM_039088694
- Peptide Label: isoform X5
- UniProtKB: A0A8I6AFG5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944618   ⟸   XM_039088690
- Peptide Label: isoform X1
- UniProtKB: Q810Z8 (UniProtKB/Swiss-Prot),   Q62911 (UniProtKB/Swiss-Prot),   Q62910 (UniProtKB/Swiss-Prot),   O89092 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_038944625   ⟸   XM_039088697
- Peptide Label: isoform X8
- UniProtKB: A0A8I6AHP8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944624   ⟸   XM_039088696
- Peptide Label: isoform X7
- UniProtKB: A0A8I6AHP8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944634   ⟸   XM_039088706
- Peptide Label: isoform X13
- UniProtKB: A6JLD6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944626   ⟸   XM_039088698
- Peptide Label: isoform X9
- UniProtKB: D4ABN3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944633   ⟸   XM_039088705
- Peptide Label: isoform X12
- UniProtKB: A6JLD7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944629   ⟸   XM_039088701
- Peptide Label: isoform X10
- UniProtKB: D4ABN3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944627   ⟸   XM_039088699
- Peptide Label: isoform X9
- UniProtKB: D4ABN3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944628   ⟸   XM_039088700
- Peptide Label: isoform X9
- UniProtKB: D4ABN3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038944630   ⟸   XM_039088702
- Peptide Label: isoform X10
- UniProtKB: D4ABN3 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000092530   ⟸   ENSRNOT00000113478
RefSeq Acc Id: ENSRNOP00000087611   ⟸   ENSRNOT00000110151
RefSeq Acc Id: ENSRNOP00000086242   ⟸   ENSRNOT00000114591
RefSeq Acc Id: ENSRNOP00000092411   ⟸   ENSRNOT00000096546
RefSeq Acc Id: NP_001401979   ⟸   NM_001415050
- Peptide Label: isoform 2
- UniProtKB: D4ABN3 (UniProtKB/TrEMBL)
Protein Domains
RRM   SAC

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q62910-F1-model_v2 AlphaFold Q62910 1-1574 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:69434 AgrOrtholog
BIND 129614
  130419
  130567
  130570
  134435
BioCyc Gene G2FUF-21927 BioCyc
Ensembl Genes ENSRNOG00000002051 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000002812 ENTREZGENE
  ENSRNOP00000002812.8 UniProtKB/TrEMBL
  ENSRNOP00000045019 ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOP00000060346 ENTREZGENE
  ENSRNOP00000060346.4 UniProtKB/TrEMBL
  ENSRNOP00000086242 ENTREZGENE
  ENSRNOP00000086242.1 UniProtKB/TrEMBL
  ENSRNOP00000087611.1 UniProtKB/TrEMBL
  ENSRNOP00000092411 ENTREZGENE
  ENSRNOP00000092411.1 UniProtKB/TrEMBL
  ENSRNOP00000092530 ENTREZGENE
  ENSRNOP00000092530.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002812 ENTREZGENE
  ENSRNOT00000002812.9 UniProtKB/TrEMBL
  ENSRNOT00000052033 ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOT00000065535 ENTREZGENE
  ENSRNOT00000065535.4 UniProtKB/TrEMBL
  ENSRNOT00000096546 ENTREZGENE
  ENSRNOT00000096546.1 UniProtKB/TrEMBL
  ENSRNOT00000110151.1 UniProtKB/TrEMBL
  ENSRNOT00000113478 ENTREZGENE
  ENSRNOT00000113478.1 UniProtKB/TrEMBL
  ENSRNOT00000114591 ENTREZGENE
  ENSRNOT00000114591.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.70.330 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.60.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro DUF1866 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Endo/exonu/phosph_ase_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Endo/exonuclease/phosphatase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IP5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IPPc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nucleotide-bd_a/b_plait_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RRM_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAC_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SYNJ1_RRM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:85238 UniProtKB/Swiss-Prot
NCBI Gene 85238 ENTREZGENE
PANTHER INOSITOL 5-PHOSPHATASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR11200:SF158 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam DUF1866 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Exo_endo_phos UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Syja_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Synj1 PhenoGen
PROSITE RRM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART DUF1866 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IPPc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF54928 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF56219 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC228838
UniProt A0A8I6A4X9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A7J7_RAT UniProtKB/TrEMBL
  A0A8I6AFG5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AHP8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2Q1A0_RAT UniProtKB/TrEMBL
  A0A8L2QTB1 ENTREZGENE, UniProtKB/TrEMBL
  A6JLD5_RAT UniProtKB/TrEMBL
  A6JLD6 ENTREZGENE, UniProtKB/TrEMBL
  A6JLD7 ENTREZGENE, UniProtKB/TrEMBL
  A6JLD8_RAT UniProtKB/TrEMBL
  A6JLD9_RAT UniProtKB/TrEMBL
  D4ABN3 ENTREZGENE, UniProtKB/TrEMBL
  O89092 ENTREZGENE
  Q62910 ENTREZGENE
  Q62911 ENTREZGENE
  Q810Z8 ENTREZGENE
  SYNJ1_RAT UniProtKB/Swiss-Prot
UniProt Secondary O89092 UniProtKB/Swiss-Prot
  Q62911 UniProtKB/Swiss-Prot
  Q810Z8 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Synj1  synaptojanin 1      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_homology amino-terminal domain has homology with yeast Sac1, which plays a role in phospholipid metabolism and in actin cytoskeleton function 69388
gene_physical_interaction binds the SH3 domain of the presynaptic protein amphiphysin 69388