Pikfyve (phosphoinositide kinase, FYVE-type zinc finger containing) - Rat Genome Database

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Gene: Pikfyve (phosphoinositide kinase, FYVE-type zinc finger containing) Rattus norvegicus
Analyze
Symbol: Pikfyve
Name: phosphoinositide kinase, FYVE-type zinc finger containing
RGD ID: 1592067
Description: Predicted to have phosphotransferase activity, alcohol group as acceptor and zinc ion binding activity. Predicted to be involved in several processes, including antigen processing and presentation of exogenous peptide antigen via MHC class II; phosphatidylinositol metabolic process; and vesicle organization. Predicted to localize to several cellular components, including cytoplasmic vesicle; membrane raft; and perinuclear region of cytoplasm. Human ortholog(s) of this gene implicated in Fleck corneal dystrophy. Orthologous to human PIKFYVE (phosphoinositide kinase, FYVE-type zinc finger containing); PARTICIPATES IN inositol metabolic pathway; phosphoinositide metabolic pathway; inositol phosphate metabolic pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; amphetamine.
Type: protein-coding
RefSeq Status: MODEL
Also known as: 1-phosphatidylinositol 3-phosphate 5-kinase; 1-phosphatidylinositol-3-phosphate 5-kinase; LOC316457; phosphatidylinositol-3-phosphate 5-kinase type III; phosphatidylinositol-3-phosphate/phosphatidylinositol 5-kinase, type III; phosphoinositide kinase, FYVE finger containing; Pip5k3; similar to phosphatidylinositol-3-phosphate/phosphatidylinositol 5-kinase, type III isoform 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2966,563,747 - 66,657,873 (+)NCBI
Rnor_6.0 Ensembl971,915,421 - 72,005,838 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0971,911,744 - 72,005,816 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0970,566,016 - 70,660,374 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4963,798,743 - 63,890,905 (+)NCBIRGSC3.4rn4RGSC3.4
Celera963,959,029 - 64,052,994 (+)NCBICelera
Cytogenetic Map9q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

References

Additional References at PubMed
PMID:9858586   PMID:11112776   PMID:12477932   PMID:14551253   PMID:15046600   PMID:15546921   PMID:16448788   PMID:16954148   PMID:17556371   PMID:17909029   PMID:19056739   PMID:19841139  
PMID:20110679   PMID:22028665   PMID:23793062   PMID:25578879   PMID:26232680  


Genomics

Comparative Map Data
Pikfyve
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2966,563,747 - 66,657,873 (+)NCBI
Rnor_6.0 Ensembl971,915,421 - 72,005,838 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0971,911,744 - 72,005,816 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0970,566,016 - 70,660,374 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4963,798,743 - 63,890,905 (+)NCBIRGSC3.4rn4RGSC3.4
Celera963,959,029 - 64,052,994 (+)NCBICelera
Cytogenetic Map9q32NCBI
PIKFYVE
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2208,266,255 - 208,358,746 (+)EnsemblGRCh38hg38GRCh38
GRCh382208,266,178 - 208,358,747 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372209,130,979 - 209,223,470 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362208,839,236 - 208,931,720 (+)NCBINCBI36hg18NCBI36
Celera2202,898,915 - 202,991,410 (+)NCBI
Cytogenetic Map2q34NCBI
HuRef2200,978,970 - 201,070,591 (+)NCBIHuRef
CHM1_12209,136,843 - 209,229,320 (+)NCBICHM1_1
Pikfyve
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39165,225,796 - 65,317,855 (+)NCBIGRCm39mm39
GRCm39 Ensembl165,225,842 - 65,317,854 (+)Ensembl
GRCm38165,186,640 - 65,278,696 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl165,186,683 - 65,278,695 (+)EnsemblGRCm38mm10GRCm38
MGSCv37165,233,259 - 65,325,270 (+)NCBIGRCm37mm9NCBIm37
MGSCv36165,120,978 - 65,208,034 (+)NCBImm8
Celera165,677,339 - 65,769,254 (+)NCBICelera
Cytogenetic Map1C3NCBI
Pikfyve
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554576,748,534 - 6,842,489 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554576,749,226 - 6,841,855 (-)NCBIChiLan1.0ChiLan1.0
PIKFYVE
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B213,628,997 - 213,721,299 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B213,628,997 - 213,721,299 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B95,505,376 - 95,597,792 (+)NCBIMhudiblu_PPA_v0panPan3
PIKFYVE
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13716,537,095 - 16,620,427 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3716,541,562 - 16,619,554 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3717,419,766 - 17,503,074 (+)NCBI
ROS_Cfam_1.03716,472,780 - 16,556,108 (+)NCBI
UMICH_Zoey_3.13716,416,782 - 16,500,119 (+)NCBI
UNSW_CanFamBas_1.03716,390,154 - 16,473,467 (+)NCBI
UU_Cfam_GSD_1.03716,399,401 - 16,482,715 (+)NCBI
Pikfyve
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303164,903,831 - 164,987,854 (+)NCBI
SpeTri2.0NW_004936950242,071 - 323,204 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PIKFYVE
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15111,372,173 - 111,467,919 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115111,372,148 - 111,468,720 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215122,893,751 - 122,991,762 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PIKFYVE
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11094,051,096 - 94,144,968 (+)NCBI
ChlSab1.1 Ensembl1094,056,923 - 94,145,268 (+)Ensembl
Vero_WHO_p1.0NW_023666040105,226,813 - 105,319,971 (-)NCBI
Pikfyve
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247657,684,770 - 7,806,381 (-)NCBI

Position Markers
D9Rat176  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2966,604,477 - 66,604,697 (+)MAPPER
Rnor_6.0971,952,431 - 71,952,650NCBIRnor6.0
Rnor_5.0970,619,305 - 70,619,524UniSTSRnor5.0
RGSC_v3.4963,839,861 - 63,840,081RGDRGSC3.4
RGSC_v3.4963,839,862 - 63,840,081UniSTSRGSC3.4
RGSC_v3.1963,986,843 - 63,987,063RGD
Celera963,999,670 - 63,999,889UniSTS
SHRSP x BN Map945.5498UniSTS
SHRSP x BN Map945.5498RGD
Cytogenetic Map9q32UniSTS
RH130569  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2966,569,205 - 66,569,418 (+)MAPPER
Rnor_6.0971,917,194 - 71,917,406NCBIRnor6.0
Rnor_5.0970,654,670 - 70,654,882UniSTSRnor5.0
RGSC_v3.4963,804,093 - 63,804,305UniSTSRGSC3.4
Celera963,964,479 - 63,964,691UniSTS
RH 3.4 Map9580.1UniSTS
Cytogenetic Map9q32UniSTS
RH143099  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2966,564,203 - 66,564,380 (+)MAPPER
Rnor_6.0971,912,193 - 71,912,369NCBIRnor6.0
Rnor_5.0970,659,707 - 70,659,883UniSTSRnor5.0
RGSC_v3.4963,799,092 - 63,799,268UniSTSRGSC3.4
Celera963,959,478 - 63,959,654UniSTS
RH 3.4 Map9569.1UniSTS
Cytogenetic Map9q32UniSTS
AI179196  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2966,612,624 - 66,612,783 (+)MAPPER
Rnor_6.0971,960,578 - 71,960,736NCBIRnor6.0
Rnor_5.0970,611,219 - 70,611,377UniSTSRnor5.0
RGSC_v3.4963,848,009 - 63,848,167UniSTSRGSC3.4
Celera964,007,817 - 64,007,975UniSTS
RH 3.4 Map9581.7UniSTS
Cytogenetic Map9q32UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9105522293442944Rat
70186Niddm26Non-insulin dependent diabetes mellitus QTL 263.87blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)92569234292741406Rat
7207814Bmd91Bone mineral density QTL 913.5femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)92748615588333183Rat
70218Cm28Cardiac mass QTL 288.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)92907507983686404Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)929075079122095297Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)929466970107878528Rat
1641894Alcrsp12Alcohol response QTL 12response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)93238513377385133Rat
7411571Bw138Body weight QTL 13814.30.001body mass (VT:0001259)body weight gain (CMO:0000420)93764235182642351Rat
7411656Foco26Food consumption QTL 269.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)93764235182642351Rat
1598834Memor11Memory QTL 112.5exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)94126103490024806Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)94126103498606834Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)941261034102531865Rat
6903941Pur31Proteinuria QTL 310.036total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)94657976991579769Rat
11353949Bp393Blood pressure QTL 393arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94657976991579769Rat
61352Bp34Blood pressure QTL 345arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94695242783686153Rat
10058949Gmadr5Adrenal mass QTL 520.014adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)94724896594124663Rat
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)95417754299177542Rat
1598849Memor17Memory QTL 172.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)95488504176677636Rat
2303170Bp332Blood pressure QTL 3323.730.027arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)96081029882732466Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)961186278106186278Rat
2303180Bp333Blood pressure QTL 3330.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)96173092382890620Rat
2303180Bp333Blood pressure QTL 3330.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)96173092382890620Rat
2303180Bp333Blood pressure QTL 3330.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)96173092382890620Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)963270073107878387Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)966757444112943287Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96745166499920892Rat
1578757Pur6Proteinuria QTL 63.30.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)96745166499920892Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)970241351115241351Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)970942881115942881Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:102
Count of miRNA genes:45
Interacting mature miRNAs:49
Transcripts:ENSRNOT00000020447, ENSRNOT00000058045
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.


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 2 5 28 12 19 12 5 5 74 35 37 11 5
Low 1 38 29 29 29 3 6 4 3
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_006226854 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226855 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226856 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226857 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226859 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226860 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226861 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226862 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006245071 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006245072 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006245073 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006245074 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006245076 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006245077 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006245078 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006245079 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008758042 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008767170 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039084595 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039084596 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039084597 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC089984 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473965 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000214 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000020447   ⟹   ENSRNOP00000020447
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl971,915,421 - 72,005,838 (+)Ensembl
RefSeq Acc Id: XM_006226854   ⟹   XP_006226916
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera963,959,219 - 64,052,994 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006226855   ⟹   XP_006226917
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera963,959,219 - 64,052,994 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006226856   ⟹   XP_006226918
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera963,959,219 - 64,052,994 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006226857   ⟹   XP_006226919
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera963,959,029 - 64,052,994 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006226859   ⟹   XP_006226921
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera963,959,029 - 64,052,994 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006226860   ⟹   XP_006226922
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera963,959,029 - 64,052,994 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006226861   ⟹   XP_006226923
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera963,959,219 - 64,052,994 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006226862   ⟹   XP_006226924
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera963,959,219 - 64,052,994 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006245071   ⟹   XP_006245133
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2966,563,945 - 66,657,873 (+)NCBI
Rnor_6.0971,911,934 - 72,005,816 (+)NCBI
Rnor_5.0970,566,016 - 70,660,374 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006245072   ⟹   XP_006245134
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2966,563,945 - 66,657,873 (+)NCBI
Rnor_6.0971,911,934 - 72,005,816 (+)NCBI
Rnor_5.0970,566,016 - 70,660,374 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006245073   ⟹   XP_006245135
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2966,563,945 - 66,657,873 (+)NCBI
Rnor_6.0971,911,934 - 72,005,816 (+)NCBI
Rnor_5.0970,566,016 - 70,660,374 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006245074   ⟹   XP_006245136
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2966,563,780 - 66,657,873 (+)NCBI
Rnor_6.0971,911,744 - 72,005,816 (+)NCBI
Rnor_5.0970,566,016 - 70,660,374 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006245076   ⟹   XP_006245138
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2966,563,747 - 66,657,873 (+)NCBI
Rnor_6.0971,911,744 - 72,005,816 (+)NCBI
Rnor_5.0970,566,016 - 70,660,374 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006245077   ⟹   XP_006245139
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2966,563,748 - 66,657,873 (+)NCBI
Rnor_6.0971,911,744 - 72,005,816 (+)NCBI
Rnor_5.0970,566,016 - 70,660,374 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006245078   ⟹   XP_006245140
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2966,563,945 - 66,657,873 (+)NCBI
Rnor_6.0971,911,934 - 72,005,816 (+)NCBI
Rnor_5.0970,566,016 - 70,660,374 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006245079   ⟹   XP_006245141
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2966,563,945 - 66,657,873 (+)NCBI
Rnor_6.0971,911,934 - 72,005,816 (+)NCBI
Rnor_5.0970,566,016 - 70,660,374 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008758042   ⟹   XP_008756264
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera963,959,219 - 63,993,469 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008767170   ⟹   XP_008765392
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0971,911,934 - 71,946,230 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039084595   ⟹   XP_038940523
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2966,563,795 - 66,657,873 (+)NCBI
RefSeq Acc Id: XM_039084596   ⟹   XP_038940524
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2966,563,945 - 66,657,873 (+)NCBI
RefSeq Acc Id: XM_039084597   ⟹   XP_038940525
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2966,618,084 - 66,657,873 (+)NCBI
Reference Sequences
RefSeq Acc Id: XP_006226916   ⟸   XM_006226854
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006226923   ⟸   XM_006226861
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006226917   ⟸   XM_006226855
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006226924   ⟸   XM_006226862
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_006226918   ⟸   XM_006226856
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006226919   ⟸   XM_006226857
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006226921   ⟸   XM_006226859
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006226922   ⟸   XM_006226860
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006245138   ⟸   XM_006245076
- Peptide Label: isoform X4
- UniProtKB: D3ZYT8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006245139   ⟸   XM_006245077
- Peptide Label: isoform X4
- UniProtKB: D3ZYT8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006245136   ⟸   XM_006245074
- Peptide Label: isoform X4
- UniProtKB: D3ZYT8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006245135   ⟸   XM_006245073
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006245141   ⟸   XM_006245079
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_006245134   ⟸   XM_006245072
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006245140   ⟸   XM_006245078
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_006245133   ⟸   XM_006245071
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008756264   ⟸   XM_008758042
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_008765392   ⟸   XM_008767170
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: ENSRNOP00000020447   ⟸   ENSRNOT00000020447
RefSeq Acc Id: XP_038940523   ⟸   XM_039084595
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038940524   ⟸   XM_039084596
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038940525   ⟸   XM_039084597
- Peptide Label: isoform X8
Protein Domains
DEP   FYVE-type   PIPK

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1592067 AgrOrtholog
Ensembl Genes ENSRNOG00000015158 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000020447 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020447 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.10 UniProtKB/TrEMBL
  3.30.40.10 UniProtKB/TrEMBL
  3.30.800.10 UniProtKB/TrEMBL
  3.50.7.10 UniProtKB/TrEMBL
InterPro Cpn60/TCP-1 UniProtKB/TrEMBL
  DEP_dom UniProtKB/TrEMBL
  GroEL-like_apical_dom UniProtKB/TrEMBL
  PIKfyve UniProtKB/TrEMBL
  PIKfyve_DEP UniProtKB/TrEMBL
  PInositol-4-P-5-kinase_core UniProtKB/TrEMBL
  PInositol-4-P-5-kinase_N UniProtKB/TrEMBL
  TCP-1-like_intermed UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/TrEMBL
  WH_DNA-bd_sf UniProtKB/TrEMBL
  Znf_FYVE UniProtKB/TrEMBL
  Znf_FYVE-rel UniProtKB/TrEMBL
  Znf_FYVE_PHD UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
NCBI Gene 316457 ENTREZGENE
PANTHER PTHR46715 UniProtKB/TrEMBL
Pfam Cpn60_TCP1 UniProtKB/TrEMBL
  DEP UniProtKB/TrEMBL
  FYVE UniProtKB/TrEMBL
  PIP5K UniProtKB/TrEMBL
PhenoGen Pikfyve PhenoGen
PROSITE DEP UniProtKB/TrEMBL
  PIPK UniProtKB/TrEMBL
  ZF_FYVE UniProtKB/TrEMBL
SMART DEP UniProtKB/TrEMBL
  FYVE UniProtKB/TrEMBL
  PIPKc UniProtKB/TrEMBL
Superfamily-SCOP FYVE_PHD_ZnF UniProtKB/TrEMBL
  SSF46785 UniProtKB/TrEMBL
  SSF52029 UniProtKB/TrEMBL
  SSF54849 UniProtKB/TrEMBL
UniProt D3ZYT8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-19 Pikfyve  phosphoinositide kinase, FYVE-type zinc finger containing  Pikfyve  phosphoinositide kinase, FYVE finger containing  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-04-23 Pikfyve  phosphoinositide kinase, FYVE finger containing  Pip5k3  phosphatidylinositol-3-phosphate/phosphatidylinositol 5-kinase, type III  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-05 Pip5k3  phosphatidylinositol-3-phosphate/phosphatidylinositol 5-kinase, type III  LOC316457  similar to phosphatidylinositol-3-phosphate/phosphatidylinositol 5-kinase, type III isoform 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC316457  similar to phosphatidylinositol-3-phosphate/phosphatidylinositol 5-kinase, type III isoform 2      Symbol and Name status set to provisional 70820 PROVISIONAL