Pacsin2 (protein kinase C and casein kinase substrate in neurons 2) - Rat Genome Database

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Gene: Pacsin2 (protein kinase C and casein kinase substrate in neurons 2) Rattus norvegicus
Analyze
Symbol: Pacsin2
Name: protein kinase C and casein kinase substrate in neurons 2
RGD ID: 69411
Description: Predicted to enable cytoskeletal protein binding activity; identical protein binding activity; and phosphatidic acid binding activity. Predicted to be involved in several processes, including caveolin-mediated endocytosis; plasma membrane organization; and protein localization to endosome. Predicted to act upstream of or within negative regulation of endocytosis. Predicted to be located in several cellular components, including caveola; nuclear speck; and recycling endosome membrane. Predicted to be extrinsic component of membrane. Predicted to be active in endosome; glutamatergic synapse; and plasma membrane. Orthologous to human PACSIN2 (protein kinase C and casein kinase substrate in neurons 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: protein kinase C and casein kinase substrate in neurons 2 protein; SdpII; SdpIIsyndapin II; synaptic dynamin-associated protein II; syndapin 2; syndapin II; syndapin-2; syndapin-II
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
mRatBN7.27114,505,525 - 114,599,087 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl7114,505,152 - 114,598,546 (-)Ensembl
Rnor_6.07124,224,210 - 124,317,407 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7124,223,633 - 124,317,379 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07124,214,202 - 124,307,009 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47121,484,248 - 121,546,498 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17121,487,482 - 121,579,686 (+)NCBI
Celera7110,819,040 - 110,881,274 (-)NCBICelera
Cytogenetic Map7q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. The regulatory subunit of PDE6 interacts with PACSIN in photoreceptors. Houdart F, etal., Mol Vis. 2005 Dec 9;11:1061-70.
4. Syndapins integrate N-WASP in receptor-mediated endocytosis. Kessels MM and Qualmann B, EMBO J 2002 Nov 15;21(22):6083-94.
5. Interaction of SPIN90 with syndapin is implicated in clathrin-mediated endocytic pathway in fibroblasts. Kim SH, etal., Genes Cells. 2006 Oct;11(10):1197-211.
6. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. Syndapin isoforms participate in receptor-mediated endocytosis and actin organization. Qualmann B and Kelly RB, J Cell Biol 2000 Mar 6;148(5):1047-62.
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. The functions of the actin nucleator Cobl in cellular morphogenesis critically depend on syndapin I. Schwintzer L, etal., EMBO J. 2011 Jul 1;30(15):3147-59. doi: 10.1038/emboj.2011.207.
11. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
12. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
13. Mutually exclusive interactions of EHD1 with GS32 and syndapin II. Xu Y, etal., Mol Membr Biol. 2004 Jul-Aug;21(4):269-77.
Additional References at PubMed
PMID:10431838   PMID:11082044   PMID:15930129   PMID:16189514   PMID:19056867   PMID:20188097   PMID:21423176   PMID:21610094   PMID:23376485   PMID:23596323   PMID:23793062   PMID:23918399  
PMID:24013648   PMID:25416956   PMID:25468996   PMID:28235806   PMID:31515488  


Genomics

Comparative Map Data
Pacsin2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27114,505,525 - 114,599,087 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl7114,505,152 - 114,598,546 (-)Ensembl
Rnor_6.07124,224,210 - 124,317,407 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7124,223,633 - 124,317,379 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07124,214,202 - 124,307,009 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47121,484,248 - 121,546,498 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17121,487,482 - 121,579,686 (+)NCBI
Celera7110,819,040 - 110,881,274 (-)NCBICelera
Cytogenetic Map7q34NCBI
PACSIN2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382242,869,766 - 43,015,149 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2242,835,412 - 43,015,149 (-)EnsemblGRCh38hg38GRCh38
GRCh372243,265,772 - 43,411,155 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362241,596,880 - 41,672,991 (-)NCBINCBI36hg18NCBI36
Build 342241,590,274 - 41,735,649NCBI
Celera2227,176,274 - 27,321,760 (-)NCBI
Cytogenetic Map22q13.2NCBI
HuRef2226,224,672 - 26,369,391 (-)NCBIHuRef
CHM1_12243,225,547 - 43,371,023 (-)NCBICHM1_1
T2T-CHM13v2.02243,350,692 - 43,496,154 (-)NCBI
Pacsin2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391583,259,808 - 83,348,816 (-)NCBIGRCm39mm39
GRCm39 Ensembl1583,259,808 - 83,348,807 (-)Ensembl
GRCm381583,375,607 - 83,464,610 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1583,375,607 - 83,464,606 (-)EnsemblGRCm38mm10GRCm38
MGSCv371583,206,037 - 83,295,036 (-)NCBIGRCm37mm9NCBIm37
MGSCv361583,203,884 - 83,260,585 (-)NCBImm8
Celera1585,508,985 - 85,597,984 (-)NCBICelera
Cytogenetic Map15E1NCBI
Pacsin2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541328,116,961 - 28,140,810 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541328,119,769 - 28,209,258 (-)NCBIChiLan1.0ChiLan1.0
PACSIN2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12241,908,922 - 42,052,327 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2241,908,922 - 41,999,692 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02223,757,565 - 23,900,837 (-)NCBIMhudiblu_PPA_v0panPan3
PACSIN2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11022,512,058 - 22,648,553 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1022,512,077 - 22,647,322 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1022,448,532 - 22,584,797 (+)NCBI
ROS_Cfam_1.01023,256,673 - 23,393,490 (+)NCBI
ROS_Cfam_1.0 Ensembl1023,256,694 - 23,393,481 (+)Ensembl
UMICH_Zoey_3.11022,975,693 - 23,111,993 (+)NCBI
UNSW_CanFamBas_1.01023,294,958 - 23,431,287 (+)NCBI
UU_Cfam_GSD_1.01023,469,880 - 23,606,571 (+)NCBI
Pacsin2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049456,129,392 - 6,241,034 (+)NCBI
SpeTri2.0NW_004936718739,133 - 850,775 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PACSIN2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl55,853,377 - 5,985,171 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.155,853,377 - 5,985,174 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.253,320,905 - 3,358,652 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PACSIN2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11925,412,627 - 25,553,919 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1925,412,394 - 25,435,169 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604599,894,616 - 100,039,255 (+)NCBIVero_WHO_p1.0
Pacsin2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247525,950,890 - 6,041,466 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046247525,927,096 - 6,041,458 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D7Rat128  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27114,527,811 - 114,528,048 (+)MAPPERmRatBN7.2
Rnor_6.07124,246,491 - 124,246,733NCBIRnor6.0
Rnor_5.07124,236,483 - 124,236,725UniSTSRnor5.0
RGSC_v3.47121,523,977 - 121,524,220RGDRGSC3.4
RGSC_v3.47121,523,978 - 121,524,220UniSTSRGSC3.4
RGSC_v3.17121,558,207 - 121,558,450RGD
Celera7110,841,297 - 110,841,485UniSTS
SHRSP x BN Map766.86RGD
SHRSP x BN Map766.86UniSTS
Cytogenetic Map7q34UniSTS
RH127347  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27114,505,611 - 114,505,816 (+)MAPPERmRatBN7.2
Rnor_6.07124,224,290 - 124,224,494NCBIRnor6.0
Rnor_5.07124,214,282 - 124,214,486UniSTSRnor5.0
RGSC_v3.47121,546,216 - 121,546,420UniSTSRGSC3.4
Celera7110,819,118 - 110,819,322UniSTS
RH 3.4 Map7911.9UniSTS
Cytogenetic Map7q34UniSTS
RH141067  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27114,506,637 - 114,506,847 (+)MAPPERmRatBN7.2
Rnor_6.07124,225,317 - 124,225,526NCBIRnor6.0
Rnor_5.07124,215,309 - 124,215,518UniSTSRnor5.0
RGSC_v3.47121,545,185 - 121,545,394UniSTSRGSC3.4
Celera7110,820,145 - 110,820,354UniSTS
RH 3.4 Map7909.6UniSTS
Cytogenetic Map7q34UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)741333674119109060Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)744421311118198041Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)769736226117455174Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)773829340130221005Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)780221299124373579Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)780221299125221299Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)781737938126737938Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)783153392128153392Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
71114Niddm14Non-insulin dependent diabetes mellitus QTL 144.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)784257275129257275Rat
2298475Eau6Experimental allergic uveoretinitis QTL 60.0029uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)784257275129257275Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)786983365131983365Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)790482196135012528Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)791281130135012528Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)791412594129807172Rat
2313102Bmd79Bone mineral density QTL 792.30.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)794811085116738842Rat
1357336Gluco6Glucose level QTL 63.4blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)794811326116294265Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)796670164135012528Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7102297359133492884Rat
70159Bp61Blood pressure QTL 610.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7103146217116738842Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7104603555135012528Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7106571501135012528Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7111075573134976056Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7111182207135012528Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7112308254133492884Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7112729683133492707Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:225
Count of miRNA genes:55
Interacting mature miRNAs:63
Transcripts:ENSRNOT00000013398, ENSRNOT00000013428, ENSRNOT00000067913
Prediction methods: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.


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 43 56 40 19 40 2 5 74 35 41 11 2
Low 1 1 1 6 6 6
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_130740 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242050 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242051 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242052 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242053 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242055 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242058 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242060 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765660 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765661 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765662 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594626 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594627 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594628 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594629 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594630 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078304 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078305 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078306 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078307 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078308 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078309 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078310 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078311 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF139492 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF139493 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF139494 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF139495 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC070911 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230278 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000187 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000013398   ⟹   ENSRNOP00000013398
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7114,506,577 - 114,598,509 (-)Ensembl
Rnor_6.0 Ensembl7124,225,255 - 124,317,379 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000013428   ⟹   ENSRNOP00000013428
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7114,505,152 - 114,567,653 (-)Ensembl
Rnor_6.0 Ensembl7124,223,633 - 124,256,148 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000067913   ⟹   ENSRNOP00000060074
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7114,506,227 - 114,598,546 (-)Ensembl
Rnor_6.0 Ensembl7124,225,704 - 124,256,077 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000088125   ⟹   ENSRNOP00000072822
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7114,505,534 - 114,567,653 (-)Ensembl
Rnor_6.0 Ensembl7124,224,212 - 124,286,478 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000111896   ⟹   ENSRNOP00000087304
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7114,505,534 - 114,528,843 (-)Ensembl
RefSeq Acc Id: NM_130740   ⟹   NP_570096
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,505,534 - 114,567,653 (-)NCBI
Rnor_6.07124,224,212 - 124,286,478 (-)NCBI
Rnor_5.07124,214,202 - 124,307,009 (-)NCBI
RGSC_v3.47121,484,248 - 121,546,498 (+)RGD
Celera7110,819,040 - 110,881,274 (-)RGD
Sequence:
RefSeq Acc Id: XM_006242050   ⟹   XP_006242112
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,505,525 - 114,568,309 (-)NCBI
Rnor_6.07124,224,210 - 124,287,162 (-)NCBI
Rnor_5.07124,214,202 - 124,307,009 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242051   ⟹   XP_006242113
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,506,576 - 114,599,087 (-)NCBI
Rnor_6.07124,225,255 - 124,317,403 (-)NCBI
Rnor_5.07124,214,202 - 124,307,009 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242052   ⟹   XP_006242114
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,505,525 - 114,568,309 (-)NCBI
Rnor_6.07124,224,210 - 124,287,162 (-)NCBI
Rnor_5.07124,214,202 - 124,307,009 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242053   ⟹   XP_006242115
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,505,525 - 114,599,087 (-)NCBI
Rnor_6.07124,224,210 - 124,317,407 (-)NCBI
Rnor_5.07124,214,202 - 124,307,009 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242055   ⟹   XP_006242117
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,506,492 - 114,598,531 (-)NCBI
Rnor_6.07124,225,255 - 124,317,403 (-)NCBI
Rnor_5.07124,214,202 - 124,307,009 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242058   ⟹   XP_006242120
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,506,576 - 114,598,504 (-)NCBI
Rnor_6.07124,225,255 - 124,317,403 (-)NCBI
Rnor_5.07124,214,202 - 124,307,009 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242060   ⟹   XP_006242122
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,506,576 - 114,598,504 (-)NCBI
Rnor_6.07124,225,255 - 124,317,403 (-)NCBI
Rnor_5.07124,214,202 - 124,307,009 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008765660   ⟹   XP_008763882
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,505,525 - 114,537,290 (-)NCBI
Rnor_6.07124,224,210 - 124,249,352 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008765662   ⟹   XP_008763884
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,505,525 - 114,599,087 (-)NCBI
Rnor_6.07124,224,210 - 124,317,407 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017594627   ⟹   XP_017450116
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,505,525 - 114,599,087 (-)NCBI
Rnor_6.07124,224,210 - 124,301,112 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039078304   ⟹   XP_038934232
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,505,525 - 114,529,068 (-)NCBI
RefSeq Acc Id: XM_039078305   ⟹   XP_038934233
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,505,525 - 114,559,102 (-)NCBI
RefSeq Acc Id: XM_039078306   ⟹   XP_038934234
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,505,525 - 114,588,481 (-)NCBI
RefSeq Acc Id: XM_039078307   ⟹   XP_038934235
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,505,525 - 114,529,076 (-)NCBI
RefSeq Acc Id: XM_039078308   ⟹   XP_038934236
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,506,492 - 114,598,561 (-)NCBI
RefSeq Acc Id: XM_039078309   ⟹   XP_038934237
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,505,534 - 114,582,237 (-)NCBI
RefSeq Acc Id: XM_039078310   ⟹   XP_038934238
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,505,525 - 114,599,087 (-)NCBI
RefSeq Acc Id: XM_039078311   ⟹   XP_038934239
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27114,505,525 - 114,537,466 (-)NCBI
Protein Sequences
Protein RefSeqs NP_570096 (Get FASTA)   NCBI Sequence Viewer  
  XP_006242112 (Get FASTA)   NCBI Sequence Viewer  
  XP_006242113 (Get FASTA)   NCBI Sequence Viewer  
  XP_006242114 (Get FASTA)   NCBI Sequence Viewer  
  XP_006242115 (Get FASTA)   NCBI Sequence Viewer  
  XP_006242117 (Get FASTA)   NCBI Sequence Viewer  
  XP_006242120 (Get FASTA)   NCBI Sequence Viewer  
  XP_006242122 (Get FASTA)   NCBI Sequence Viewer  
  XP_008763882 (Get FASTA)   NCBI Sequence Viewer  
  XP_008763884 (Get FASTA)   NCBI Sequence Viewer  
  XP_017450116 (Get FASTA)   NCBI Sequence Viewer  
  XP_038934232 (Get FASTA)   NCBI Sequence Viewer  
  XP_038934233 (Get FASTA)   NCBI Sequence Viewer  
  XP_038934234 (Get FASTA)   NCBI Sequence Viewer  
  XP_038934235 (Get FASTA)   NCBI Sequence Viewer  
  XP_038934236 (Get FASTA)   NCBI Sequence Viewer  
  XP_038934237 (Get FASTA)   NCBI Sequence Viewer  
  XP_038934238 (Get FASTA)   NCBI Sequence Viewer  
  XP_038934239 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAF22211 (Get FASTA)   NCBI Sequence Viewer  
  AAF22212 (Get FASTA)   NCBI Sequence Viewer  
  AAF22213 (Get FASTA)   NCBI Sequence Viewer  
  AAF22214 (Get FASTA)   NCBI Sequence Viewer  
  AAH70911 (Get FASTA)   NCBI Sequence Viewer  
  EDM15628 (Get FASTA)   NCBI Sequence Viewer  
  EDM15629 (Get FASTA)   NCBI Sequence Viewer  
  EDM15630 (Get FASTA)   NCBI Sequence Viewer  
  EDM15631 (Get FASTA)   NCBI Sequence Viewer  
  Q9QY17 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_570096   ⟸   NM_130740
- UniProtKB: Q9QY17 (UniProtKB/Swiss-Prot),   Q6IRI3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006242115   ⟸   XM_006242053
- Peptide Label: isoform X3
- UniProtKB: Q9QY17 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006242122   ⟸   XM_006242060
- Peptide Label: isoform X8
- UniProtKB: Q9QY17 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006242117   ⟸   XM_006242055
- Peptide Label: isoform X5
- UniProtKB: Q9QY17 (UniProtKB/Swiss-Prot),   Q6IRI3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006242120   ⟸   XM_006242058
- Peptide Label: isoform X7
- UniProtKB: Q9QY17 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006242113   ⟸   XM_006242051
- Peptide Label: isoform X3
- UniProtKB: Q9QY17 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006242114   ⟸   XM_006242052
- Peptide Label: isoform X3
- UniProtKB: Q9QY17 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006242112   ⟸   XM_006242050
- Peptide Label: isoform X3
- UniProtKB: Q9QY17 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008763884   ⟸   XM_008765662
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_008763882   ⟸   XM_008765660
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017450116   ⟸   XM_017594627
- Peptide Label: isoform X3
- UniProtKB: Q9QY17 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000060074   ⟸   ENSRNOT00000067913
RefSeq Acc Id: ENSRNOP00000013428   ⟸   ENSRNOT00000013428
RefSeq Acc Id: ENSRNOP00000013398   ⟸   ENSRNOT00000013398
RefSeq Acc Id: ENSRNOP00000072822   ⟸   ENSRNOT00000088125
RefSeq Acc Id: XP_038934238   ⟸   XM_039078310
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038934234   ⟸   XM_039078306
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038934233   ⟸   XM_039078305
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038934239   ⟸   XM_039078311
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038934235   ⟸   XM_039078307
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038934232   ⟸   XM_039078304
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038934237   ⟸   XM_039078309
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038934236   ⟸   XM_039078308
- Peptide Label: isoform X5
RefSeq Acc Id: ENSRNOP00000087304   ⟸   ENSRNOT00000111896
Protein Domains
F-BAR   SH3

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9QY17-F1-model_v2 AlphaFold Q9QY17 1-488 view protein structure

Transcriptome

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

Promoters
RGD ID:13695546
Promoter ID:EPDNEW_R6071
Type:initiation region
Name:Pacsin2_2
Description:protein kinase C and casein kinase substrate in neurons 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R6072  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07124,286,505 - 124,286,565EPDNEW
RGD ID:13695558
Promoter ID:EPDNEW_R6072
Type:initiation region
Name:Pacsin2_1
Description:protein kinase C and casein kinase substrate in neurons 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R6071  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07124,317,422 - 124,317,482EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
7 124238351 124238352 C T snv ACI/N (MCW), Buf/N (MCW), WN/N (MCW), MR/N (MCW), F344/NRrrc (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:69411 AgrOrtholog
BioCyc Gene G2FUF-32604 BioCyc
Ensembl Genes ENSRNOG00000009756 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000013398 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000013428 ENTREZGENE
  ENSRNOP00000013428.6 UniProtKB/TrEMBL
  ENSRNOP00000060074 ENTREZGENE
  ENSRNOP00000072822 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000087304 ENTREZGENE
  ENSRNOP00000087304.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013398 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000013428 ENTREZGENE
  ENSRNOT00000013428.8 UniProtKB/TrEMBL
  ENSRNOT00000067913 ENTREZGENE
  ENSRNOT00000088125 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000111896 ENTREZGENE
  ENSRNOT00000111896.1 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1270.60 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7104542 IMAGE-MGC_LOAD
InterPro AH/BAR_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  F_BAR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FCH_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PACSIN1/PACSIN2_SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PACSIN2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PACSIN2_F-BAR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:124461 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:91517 IMAGE-MGC_LOAD
NCBI Gene 124461 ENTREZGENE
PANTHER PTHR23065:SF14 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam FCH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Pacsin2 PhenoGen
PRINTS SH3DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE F_BAR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART FCH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF103657 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF50044 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC230697
  TC230698
UniProt A0A8I6A2Y6_RAT UniProtKB/TrEMBL
  PACN2_RAT UniProtKB/Swiss-Prot
  Q6IRI3 ENTREZGENE, UniProtKB/TrEMBL
  Q9QY17 ENTREZGENE
  R9PXU3_RAT UniProtKB/TrEMBL
UniProt Secondary Q9QY18 UniProtKB/Swiss-Prot
  Q9QY19 UniProtKB/Swiss-Prot
  Q9QY20 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Pacsin2  protein kinase C and casein kinase substrate in neurons 2      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference