pycom06g13350

Protein ROOT INITIATION DEFECTIVE 3-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr6
OG0012617
Physical Location & Seq
Forward (+)
18375510 .. 18376918
1409 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom06g13350.1

Sequence Viewer

Length: 756 bp
ATGCATACTCAAGTTTATCCACTAGGGATAACTGCAGTTGCTCTTCACCCAACGAAGCAGTTAATTTTCTCCGGAAGTATAGACGGAAGCATTTTTGTGAACAAACTTGAAATCGGACTGGTAGAGGATTATTTGGTTGGTGCTGAAGATCATTCACCTGTGCTAAAAGAACACAATGGATCTGTTACCGCATTAACCTTCAGCAAATCGGGTCTGATATCCGCATCTGAGGACTGCACCATCTGCATTTGGGACATCACCAGTTGTGAAATCATCCGAAGATTCAACCATCAGAAAGGGCCTGTGACTAATCTGGCAGTGATTCCACAGTCCTCGTTGCTTCCAGTGTCAAACCATCGTAAACTATCTAATGCACTTGGTGTTTCTATCCTCGACAAGTATCCGCAACCTGCAAACTCATCAGAGGAGAAAATCACTCTTTTTCCATCATGCCAACCCTCCGTGAATTTCCAAACCTCGGGTTCATGCCAACAAATATATGACATGAAGAAAGAGGGCACTGTTGCAGCAATGGAGATGAAATTGGAAACTTGTCTAGAGGACCGAATGAGGGCGACAAAAATGGCAAAGCATGTGATGGAGATGAACAGGCATTTGCAATCACGTTTGCTAGACTTGATGGAGAGCAGATTGTCGCTGCCCAAGTCTAGCGAAATTGATTCACCTTCGACGAAAAAGAGCAAGACTGCCAAGCTTGAAAACCCCCCATTGCAGCAGGAGGAGGAGCAGCCATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0007275 GO:0007368 GO:0007389 GO:0008150 GO:0009799 GO:0009855 GO:0032501 GO:0032502 GO:0048856 GO:0070121
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
WD40

Protein Analysis

252

Amino Acids

27.79

Weight (kDa)

6.25

Isoelectric Point (pI)

61.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
WD40_Prp19 PF24814 7 - 179 2.6e-10 Prp19 WD40 domain
Beta-prop_WDR5 PF25175 9 - 114 1.8e-09 WDR5 beta-propeller domain
Beta-prop_WDR3_1st PF25173 10 - 114 3.6e-12 WDR3 first beta-propeller domain
Beta-prop_THOC3 PF25174 10 - 128 8.4e-10 THOC3 beta-propeller domain
WDR55 PF24796 10 - 110 1.2e-07 WDR55
WD40 PF00400 54 - 85 5e-06 WD domain, G-beta repeat
Beta-prop_WDR36-Utp21_2nd PF25168 55 - 118 8e-07 WDR36/Utp21 second beta-propeller domain
Beta-prop_TEP1_C PF25048 58 - 111 1.4e-06 TEP-1 C-terminal beta-propeller
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 418
AccIII TCCGGA 1 cut(s) 71
AciI CCGC 3 cut(s) 189, 222, 404
AclWI GGATC 1 cut(s) 187
AcsI RAATTY 1 cut(s) 466
AcuI CTGAAG 2 cut(s) 165, 184
AdeI CACNNNGTG 1 cut(s) 380
AfiI CCNNNNNNNGG 2 cut(s) 478, 571
AgsI TTSAA 3 cut(s) 110, 286, 719
AluBI AGCT 1 cut(s) 715
AluI AGCT 1 cut(s) 715
AlwI GGATC 1 cut(s) 187
Ama87I CYCGRG 1 cut(s) 478
Aor13HI TCCGGA 1 cut(s) 71
AoxI GGCC 1 cut(s) 299
ApeKI GCWGC 4 cut(s) 527, 658, 733, 748
ApoI RAATTY 1 cut(s) 466
AspS9I GGNCC 2 cut(s) 299, 562
AsuHPI GGTGA 4 cut(s) 38, 147, 250, 675
AvaI CYCGRG 1 cut(s) 478
AvaII GGWCC 1 cut(s) 562
BaeGI GKGCMC 1 cut(s) 521
BbvI GCAGC 3 cut(s) 539, 645, 745
BccI CCATC 6 cut(s) 248, 297, 363, 454, 592, 634
BciVI GTATCC 1 cut(s) 411
BfaI CTAG 4 cut(s) 23, 557, 632, 669
BfmI CTRYAG 1 cut(s) 33
BfuAI ACCTGC 1 cut(s) 418
BfuI GTATCC 1 cut(s) 411
BisI GCNGC 4 cut(s) 528, 659, 734, 749
BlsI GCNGC 4 cut(s) 529, 660, 735, 750
Bme18I GGWCC 1 cut(s) 562
BmeT110I CYCGRG 1 cut(s) 478
BmgT120I GGNCC 2 cut(s) 299, 562
BmsI GCATC 1 cut(s) 233
BsaJI CCNNGG 1 cut(s) 477
BsaWI WCCGGW 1 cut(s) 71
Bsc4I CCNNNNNNNGG 2 cut(s) 478, 571
Bse1I ACTGG 3 cut(s) 123, 261, 344
Bse3DI GCAATG 2 cut(s) 537, 728
BseAI TCCGGA 1 cut(s) 71
BseDI CCNNGG 1 cut(s) 477
BseGI GGATG 1 cut(s) 273
BseLI CCNNNNNNNGG 2 cut(s) 478, 571
BseMI GCAATG 2 cut(s) 537, 728
BseMII CTCAG 1 cut(s) 219
BseNI ACTGG 3 cut(s) 123, 261, 344
BseRI GAGGAG 2 cut(s) 440, 755
BseSI GKGCMC 1 cut(s) 521
BseXI GCAGC 3 cut(s) 539, 645, 745
BsgI GTGCAG 1 cut(s) 220
BshFI GGCC 1 cut(s) 301
BsiHKCI CYCGRG 1 cut(s) 478
BsiSI CCGG 1 cut(s) 72
BslFI GGGAC 1 cut(s) 266
BslI CCNNNNNNNGG 2 cut(s) 478, 571
BsmFI GGGAC 1 cut(s) 266
BsnI GGCC 1 cut(s) 301
BsoBI CYCGRG 1 cut(s) 478
Bsp1286I GDGCHC 1 cut(s) 521
Bsp13I TCCGGA 1 cut(s) 71
Bsp143I GATC 2 cut(s) 148, 179
BspACI CCGC 3 cut(s) 189, 222, 404
BspANI GGCC 1 cut(s) 301
BspCNI CTCAG 1 cut(s) 220
BspEI TCCGGA 1 cut(s) 71
BspMAI CTGCAG 1 cut(s) 37
BspMI ACCTGC 1 cut(s) 418
BspPI GGATC 1 cut(s) 187
BspQI GCTCTTC 1 cut(s) 48
BsrDI GCAATG 2 cut(s) 537, 728
BsrI ACTGG 3 cut(s) 123, 261, 344
BssECI CCNNGG 1 cut(s) 477
BssMI GATC 2 cut(s) 148, 179
Bst4CI ACNGT 2 cut(s) 330, 523
Bst6I CTCTTC 1 cut(s) 48
BstAPI GCANNNNNTGC 1 cut(s) 243
BstDEI CTNAG 1 cut(s) 228
BstF5I GGATG 1 cut(s) 273
BstKTI GATC 2 cut(s) 151, 182
BstMBI GATC 2 cut(s) 148, 179
BstMWI GCNNNNNNNGC 1 cut(s) 243
BstNSI RCATGY 1 cut(s) 596
BstSFI CTRYAG 1 cut(s) 33
BstSLI GKGCMC 1 cut(s) 521
BstV1I GCAGC 3 cut(s) 539, 645, 745
BstX2I RGATCY 1 cut(s) 179
BstYI RGATCY 1 cut(s) 179
BsuI GTATCC 1 cut(s) 411
BsuRI GGCC 1 cut(s) 301
BtsCI GGATG 1 cut(s) 273
BtsI GCAGTG 1 cut(s) 324
BtsIMutI CAGTG 3 cut(s) 324, 351, 519
BveI ACCTGC 1 cut(s) 418
Cfr13I GGNCC 2 cut(s) 299, 562
CviAII CATG 4 cut(s) 450, 486, 505, 593
CviJI RGCY 3 cut(s) 301, 715, 751
CviKI_1 RGCY 3 cut(s) 301, 715, 751
DdeI CTNAG 1 cut(s) 228
DpnI GATC 2 cut(s) 150, 181
DpnII GATC 2 cut(s) 148, 179
DraIII CACNNNGTG 1 cut(s) 380
Eam1104I CTCTTC 1 cut(s) 48
EarI CTCTTC 1 cut(s) 48
Eco32I GATATC 1 cut(s) 219
Eco47I GGWCC 1 cut(s) 562
Eco57I CTGAAG 2 cut(s) 165, 184
Eco88I CYCGRG 1 cut(s) 478
EcoO109I RGGNCCY 1 cut(s) 299
EcoRV GATATC 1 cut(s) 219
EcoT22I ATGCAT 1 cut(s) 6
FaeI CATG 4 cut(s) 453, 489, 508, 596
FaiI YATR 9 cut(s) 6, 80, 451, 487, 499, 501, 506, 594, 754
FaqI GGGAC 1 cut(s) 266
FatI CATG 4 cut(s) 449, 485, 504, 592
Fnu4HI GCNGC 4 cut(s) 528, 659, 734, 749
FokI GGATG 1 cut(s) 260
Fsp4HI GCNGC 4 cut(s) 528, 659, 734, 749
FspBI CTAG 4 cut(s) 23, 557, 632, 669
GluI GCNGC 4 cut(s) 528, 659, 734, 749
HaeIII GGCC 1 cut(s) 301
HapII CCGG 1 cut(s) 72
Hin1II CATG 4 cut(s) 453, 489, 508, 596
HindIII AAGCTT 1 cut(s) 713
HinfI GANTC 3 cut(s) 282, 322, 680
HpaII CCGG 1 cut(s) 72
HphI GGTGA 4 cut(s) 38, 147, 250, 675
Hpy166II GTNNAC 2 cut(s) 100, 362
Hpy188I TCNGA 6 cut(s) 116, 216, 229, 278, 294, 424
Hpy188III TCNNGA 2 cut(s) 72, 557
Hpy8I GTNNAC 2 cut(s) 100, 362
Hpy99I CGWCG 1 cut(s) 694
HpyAV CCTTC 2 cut(s) 208, 696
HpyCH4III ACNGT 2 cut(s) 330, 523
HpyCH4IV ACGT 1 cut(s) 625
HpyCH4V TGCA 9 cut(s) 4, 35, 237, 246, 374, 413, 527, 619, 733
HpyF10VI GCNNNNNNNGC 1 cut(s) 243
HpyF3I CTNAG 1 cut(s) 228
HpySE526I ACGT 1 cut(s) 625
Hsp92II CATG 4 cut(s) 453, 489, 508, 596
Kpn2I TCCGGA 1 cut(s) 71
Kzo9I GATC 2 cut(s) 148, 179
LguI GCTCTTC 1 cut(s) 48
LmnI GCTCC 1 cut(s) 745
Lsp1109I GCAGC 3 cut(s) 539, 645, 745
LweI GCATC 1 cut(s) 233
MaeI CTAG 4 cut(s) 23, 557, 632, 669
MaeII ACGT 1 cut(s) 625
MaeIII GTNAC 2 cut(s) 184, 304
MalI GATC 2 cut(s) 150, 181
MboI GATC 2 cut(s) 148, 179
MboII GAAGA 4 cut(s) 35, 158, 291, 520
MflI RGATCY 1 cut(s) 179
MhlI GDGCHC 1 cut(s) 521
MluCI AATT 4 cut(s) 63, 466, 542, 675
Mph1103I ATGCAT 1 cut(s) 6
MroI TCCGGA 1 cut(s) 71
MseI TTAA 2 cut(s) 62, 194
MslI CAYNNNNRTG 1 cut(s) 95
MspI CCGG 1 cut(s) 72
MwoI GCNNNNNNNGC 1 cut(s) 243
NdeII GATC 2 cut(s) 148, 179
NlaIII CATG 4 cut(s) 453, 489, 508, 596
NmuCI GTSAC 1 cut(s) 304
NsiI ATGCAT 1 cut(s) 6
NspI RCATGY 1 cut(s) 596
PciSI GCTCTTC 1 cut(s) 48
PfeI GAWTC 3 cut(s) 282, 322, 680
PkrI GCNGC 4 cut(s) 529, 660, 735, 750
PspPI GGNCC 2 cut(s) 299, 562
PstI CTGCAG 1 cut(s) 37
PsuI RGATCY 1 cut(s) 179
RseI CAYNNNNRTG 1 cut(s) 95
SapI GCTCTTC 1 cut(s) 48
SaqAI TTAA 2 cut(s) 62, 194
SatI GCNGC 4 cut(s) 528, 659, 734, 749
Sau3AI GATC 2 cut(s) 148, 179
Sau96I GGNCC 2 cut(s) 299, 562
SduI GDGCHC 1 cut(s) 521
SetI ASST 7 cut(s) 160, 200, 412, 479, 628, 688, 717
SfaNI GCATC 1 cut(s) 233
SfcI CTRYAG 1 cut(s) 33
SinI GGWCC 1 cut(s) 562
SmiMI CAYNNNNRTG 1 cut(s) 95
SmlI CTYRAG 1 cut(s) 9
SmoI CTYRAG 1 cut(s) 9
Sse9I AATT 4 cut(s) 63, 466, 542, 675
SsiI CCGC 3 cut(s) 189, 222, 404
SspMI CTAG 4 cut(s) 23, 557, 632, 669
TaaI ACNGT 2 cut(s) 330, 523
TaiI ACGT 1 cut(s) 628
TaqI TCGA 2 cut(s) 393, 689
TaqII GACCGA 1 cut(s) 579
TasI AATT 4 cut(s) 63, 466, 542, 675
TfiI GAWTC 3 cut(s) 282, 322, 680
Tru1I TTAA 2 cut(s) 62, 194
Tru9I TTAA 2 cut(s) 62, 194
TscAI CASTG 3 cut(s) 324, 351, 526
TseFI GTSAC 1 cut(s) 304
TseI GCWGC 4 cut(s) 527, 658, 733, 748
Tsp45I GTSAC 1 cut(s) 304
TspDTI ATGAA 4 cut(s) 474, 521, 554, 620
TspGWI ACGGA 2 cut(s) 99, 451
TspRI CASTG 3 cut(s) 324, 351, 526
VpaK11BI GGWCC 1 cut(s) 562
XapI RAATTY 1 cut(s) 466
XbaI TCTAGA 1 cut(s) 556
XceI RCATGY 1 cut(s) 596
XspI CTAG 4 cut(s) 23, 557, 632, 669
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.