SYNJ1 (synaptojanin 1) - Rat Genome Database

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Gene: SYNJ1 (synaptojanin 1) Pan paniscus
Analyze
Symbol: SYNJ1
Name: synaptojanin 1
RGD ID: 11907209
Description: ENCODES a protein that exhibits EH domain binding (ortholog); inositol-1,4,5-trisphosphate 5-phosphatase activity (ortholog); phosphatidylinositol phosphate 5-phosphatase activity (ortholog); INVOLVED IN learning (ortholog); neurotransmitter transport (ortholog); phosphatidylinositol dephosphorylation (ortholog); PARTICIPATES IN altered clathrin-dependent synaptic vesicle endocytosis; clathrin-dependent synaptic vesicle endocytosis; ephrin - ephrin receptor bidirectional signaling axis; ASSOCIATED WITH amyotrophic lateral sclerosis type 1 (ortholog); autosomal dominant intellectual developmental disorder 7 (ortholog); developmental and epileptic encephalopathy 1 (ortholog); FOUND IN clathrin coat of coated pit (ortholog); glutamatergic synapse (ortholog); membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: synaptojanin-1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly
Position:
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22228,740,967 - 28,840,743 (-)NCBINHGRI_mPanPan1-v2
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
SYNJ1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22228,740,967 - 28,840,743 (-)NCBINHGRI_mPanPan1-v2
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
(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
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81143,678,709 - 43,755,526 (-)NCBIGRCr8
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
(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
(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 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
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


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_003823994 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003823995 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003823996 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003823997 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008977712 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034948264 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034948266 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034948267 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034948268 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034948269 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034948270 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034948271 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034948272 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034948273 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034948274 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034948275 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034948277 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034948278 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_055105250 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063601298 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063601299 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JARIFH020000022 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSPPAT00000030034   ⟹   ENSPPAP00000007566
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl2132,368,949 - 32,466,994 (-)Ensembl
RefSeq Acc Id: ENSPPAT00000030035   ⟹   ENSPPAP00000007567
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl2132,368,949 - 32,466,994 (-)Ensembl
RefSeq Acc Id: ENSPPAT00000030039   ⟹   ENSPPAP00000007570
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl2132,368,949 - 32,466,887 (-)Ensembl
RefSeq Acc Id: ENSPPAT00000030040   ⟹   ENSPPAP00000007571
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl2132,368,949 - 32,466,887 (-)Ensembl
RefSeq Acc Id: ENSPPAT00000030044   ⟹   ENSPPAP00000007574
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl2132,371,195 - 32,466,994 (-)Ensembl
RefSeq Acc Id: XM_003823994   ⟹   XP_003824042
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22228,740,967 - 28,839,184 (-)NCBI
NHGRI_mPanPan12123,600,937 - 23,699,134 (-)NCBI
Mhudiblu_PPA_v02118,990,526 - 19,088,730 (-)NCBI
PanPan1.12132,368,949 - 32,466,887 (-)NCBI
Sequence:
RefSeq Acc Id: XM_003823995   ⟹   XP_003824043
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22228,740,967 - 28,840,740 (-)NCBI
NHGRI_mPanPan12123,600,937 - 23,700,707 (-)NCBI
Mhudiblu_PPA_v02118,990,526 - 19,088,837 (-)NCBI
PanPan1.12132,368,949 - 32,466,994 (-)NCBI
Sequence:
RefSeq Acc Id: XM_003823996   ⟹   XP_003824044
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22228,743,884 - 28,839,170 (-)NCBI
NHGRI_mPanPan12123,603,854 - 23,699,134 (-)NCBI
Mhudiblu_PPA_v02118,990,526 - 19,088,730 (-)NCBI
PanPan1.12132,368,949 - 32,466,887 (-)NCBI
Sequence:
RefSeq Acc Id: XM_003823997   ⟹   XP_003824045
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22228,743,884 - 28,840,742 (-)NCBI
NHGRI_mPanPan12123,603,854 - 23,700,709 (-)NCBI
Mhudiblu_PPA_v02118,990,526 - 19,088,837 (-)NCBI
PanPan1.12132,368,949 - 32,466,994 (-)NCBI
Sequence:
RefSeq Acc Id: XM_034948271   ⟹   XP_034804162
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22228,740,967 - 28,840,741 (-)NCBI
NHGRI_mPanPan12123,600,937 - 23,700,708 (-)NCBI
Mhudiblu_PPA_v02118,990,526 - 19,088,837 (-)NCBI
RefSeq Acc Id: XM_034948272   ⟹   XP_034804163
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22228,743,884 - 28,840,743 (-)NCBI
NHGRI_mPanPan12123,603,854 - 23,700,710 (-)NCBI
Mhudiblu_PPA_v02118,993,447 - 19,088,837 (-)NCBI
RefSeq Acc Id: XM_034948273   ⟹   XP_034804164
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22228,747,071 - 28,840,743 (-)NCBI
NHGRI_mPanPan12123,607,041 - 23,700,710 (-)NCBI
Mhudiblu_PPA_v02118,996,632 - 19,088,838 (-)NCBI
RefSeq Acc Id: XM_034948274   ⟹   XP_034804165
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22228,743,884 - 28,840,743 (-)NCBI
NHGRI_mPanPan12123,603,854 - 23,700,710 (-)NCBI
Mhudiblu_PPA_v02118,993,447 - 19,088,838 (-)NCBI
RefSeq Acc Id: XM_034948277   ⟹   XP_034804168
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22228,743,884 - 28,840,742 (-)NCBI
NHGRI_mPanPan12123,603,854 - 23,700,709 (-)NCBI
Mhudiblu_PPA_v02118,993,256 - 19,088,837 (-)NCBI
RefSeq Acc Id: XM_034948278   ⟹   XP_034804169
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22228,743,884 - 28,840,743 (-)NCBI
NHGRI_mPanPan12123,603,854 - 23,700,710 (-)NCBI
Mhudiblu_PPA_v02118,990,526 - 19,088,839 (-)NCBI
RefSeq Acc Id: XM_055105250   ⟹   XP_054961225
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22228,740,967 - 28,840,741 (-)NCBI
NHGRI_mPanPan12123,600,937 - 23,700,708 (-)NCBI
RefSeq Acc Id: XM_063601298   ⟹   XP_063457368
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22228,740,967 - 28,840,741 (-)NCBI
RefSeq Acc Id: XM_063601299   ⟹   XP_063457369
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22228,743,884 - 28,840,742 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_003824043   ⟸   XM_003823995
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_003824045   ⟸   XM_003823997
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_003824044   ⟸   XM_003823996
- Peptide Label: isoform X12
- Sequence:
RefSeq Acc Id: XP_003824042   ⟸   XM_003823994
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_034804169   ⟸   XM_034948278
- Peptide Label: isoform X11
RefSeq Acc Id: XP_034804162   ⟸   XM_034948271
- Peptide Label: isoform X3
RefSeq Acc Id: XP_034804168   ⟸   XM_034948277
- Peptide Label: isoform X10
RefSeq Acc Id: XP_034804165   ⟸   XM_034948274
- Peptide Label: isoform X7
RefSeq Acc Id: XP_034804163   ⟸   XM_034948272
- Peptide Label: isoform X6
RefSeq Acc Id: XP_034804164   ⟸   XM_034948273
- Peptide Label: isoform X6
RefSeq Acc Id: ENSPPAP00000007567   ⟸   ENSPPAT00000030035
RefSeq Acc Id: ENSPPAP00000007570   ⟸   ENSPPAT00000030039
RefSeq Acc Id: ENSPPAP00000007566   ⟸   ENSPPAT00000030034
RefSeq Acc Id: ENSPPAP00000007571   ⟸   ENSPPAT00000030040
RefSeq Acc Id: ENSPPAP00000007574   ⟸   ENSPPAT00000030044
RefSeq Acc Id: XP_054961225   ⟸   XM_055105250
- Peptide Label: isoform X4
RefSeq Acc Id: XP_063457368   ⟸   XM_063601298
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063457369   ⟸   XM_063601299
- Peptide Label: isoform X9
Protein Domains
RRM   SAC


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSPPAG00000026784 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSPPAT00000030034.1 UniProtKB/TrEMBL
  ENSPPAT00000030035.1 UniProtKB/TrEMBL
  ENSPPAT00000030039.1 UniProtKB/TrEMBL
  ENSPPAT00000030040.1 UniProtKB/TrEMBL
  ENSPPAT00000030044.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.70.330 UniProtKB/TrEMBL
  3.60.10.10 UniProtKB/TrEMBL
InterPro DUF1866 UniProtKB/TrEMBL
  Endo/exonu/phosph_ase_sf UniProtKB/TrEMBL
  IP5 UniProtKB/TrEMBL
  IPPc UniProtKB/TrEMBL
  Nucleotide-bd_a/b_plait_sf UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/TrEMBL
  RRM_dom UniProtKB/TrEMBL
  SAC_dom UniProtKB/TrEMBL
  SYNJ1_RRM UniProtKB/TrEMBL
KEGG Report pps:100969564 UniProtKB/TrEMBL
NCBI Gene SYNJ1 ENTREZGENE
PANTHER INOSITOL 5-PHOSPHATASE UniProtKB/TrEMBL
  PTHR11200:SF158 UniProtKB/TrEMBL
Pfam DUF1866 UniProtKB/TrEMBL
  Syja_N UniProtKB/TrEMBL
PROSITE RRM UniProtKB/TrEMBL
  SAC UniProtKB/TrEMBL
SMART DUF1866 UniProtKB/TrEMBL
  IPPc UniProtKB/TrEMBL
Superfamily-SCOP SSF54928 UniProtKB/TrEMBL
  SSF56219 UniProtKB/TrEMBL
UniProt A0A2R8ZRH4_PANPA UniProtKB/TrEMBL
  A0A2R8ZRH7_PANPA UniProtKB/TrEMBL
  A0A2R8ZRI4_PANPA UniProtKB/TrEMBL
  A0A2R8ZUN5_PANPA UniProtKB/TrEMBL
  A0A2R8ZXB5_PANPA UniProtKB/TrEMBL