pycom09g19880

Protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr9
OG0010308
Physical Location & Seq
Forward (+)
20722203 .. 20724472
2270 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1185 bp
ATGATCGGATTGGTTATTTCAACAGATATGGTGGACTGCTTAATGTCGAGAGCTCAACAAATGATGGAACTTAAGCTGTTTCCTTCTTCCACCAAGTCCCTTTCTTTGCCCTTGTTTCTCTCCTCCTCCTCTTGCACCAAATCTCCTTTTCTTCTCAAACCCAAGCAATCTCTCAAAACCCCCCATTTCTCGCTCTCCCAAAAATCCCAGTTCTGGGGAAATGGTTTAGTTTTACACGAGAGAGATGCTGCTTGGGGTAACCTCGCCAAAACCACCCATGTCCCATTTGGCCCAATATGTGCTGCTGCTGTCAAGAGAAGGAAAGAGCTTCCCTTTGACAACGTCATTCAAAAGGATAAGAAGCTGAAGCTGGTTCTCAAGATACGCAAGATTTTAGTCAGCCAACCTGATAGAGTTATGTCGCTTAGAGAGTTAGGTAGGTACAGGAGAGAATTGGGTCTGCAGAAAAAGCGCCGTTTCATTGCCCTTTTAAAGAAATTCCCAGCCGTGTTTGAGATTGTTGAAGAAGGGGTTTATTCCTTGCAATTTAAACTGACTCCCGAAGCCGAAAGGCTTTATTTTGAGGAGTTGAAGGTTAGGAATGAGATGGAAGACCTGCTGGTGGTCAGGTTGAGGAAATTGTTGATGATGTCGTTGGATAAGCGGATTCTGTTGGAAAAGATTGCCCATTTGAGAAATGATTTAGGGCTTCCCCAGGAGTTTCGTGACACTATTTGTCACCGGTACCCACAGTTCTTTAAAGTAGTTGCAACTGCGAGAGGTCCGGCATTAGAATTAACTCATTGGGACCCTGAACTTGCAGTCTCAGCAGCTGAGTTGTCTGAAGAGGAAAACCGGGTTAGAGAGATAGAAGAGAAGGATTTGATTATAGATAGGCCTATCAAGTTCAATAGACTAAAGCTGCCAAAGGGCCTCAATCTTTCAAAGGGTGAGATGAGGAGGATATGCCTGTTTAGAGACATACCTTATATATCCCCATACTCTGATTTCTCGGGACTGAGATCAGGTACTATTGAGAAAGAGAAACATGCTTGTGCGGTTGTTCATGAGATTTTGAGTCTTACTGTGGAGAAGAGAACTCTTGTGGATCACCTTACTCATTTTCGAGAAGAGTTTAAGTTCTCTCAACAGGTGAGGGGGAAGCATATCGTGATTCTCAATTGA

Protein Analysis

395

Amino Acids

45.69

Weight (kDa)

9.69

Isoelectric Point (pI)

50.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 108 - 386 2.9e-86 Plant organelle RNA recognition domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 624
Acc65I GGTACC 1 cut(s) 744
AccB1I GGYRCC 1 cut(s) 744
AciI CCGC 2 cut(s) 664, 1058
AclWI GGATC 1 cut(s) 1116
AcsI RAATTY 1 cut(s) 497
AcuI CTGAAG 2 cut(s) 386, 864
AfaI GTAC 3 cut(s) 443, 746, 1030
AfiI CCNNNNNNNGG 3 cut(s) 213, 214, 622
AflII CTTAAG 1 cut(s) 71
AgeI ACCGGT 1 cut(s) 741
AgsI TTSAA 6 cut(s) 21, 350, 524, 592, 910, 945
AjnI CCWGG 1 cut(s) 714
AluBI AGCT 7 cut(s) 53, 76, 328, 364, 370, 833, 922
AluI AGCT 7 cut(s) 53, 76, 328, 364, 370, 833, 922
Alw21I GWGCWC 1 cut(s) 55
Alw26I GTCTC 2 cut(s) 829, 972
AlwI GGATC 1 cut(s) 1116
AlwNI CAGNNNCTG 1 cut(s) 833
Ama87I CYCGRG 1 cut(s) 1012
AoxI GGCC 3 cut(s) 289, 896, 931
ApeKI GCWGC 5 cut(s) 248, 302, 305, 830, 922
ApoI RAATTY 1 cut(s) 497
AsiGI ACCGGT 1 cut(s) 741
Asp718I GGTACC 1 cut(s) 744
AspLEI GCGC 1 cut(s) 474
AspS9I GGNCC 4 cut(s) 290, 782, 808, 931
AsuC2I CCSGG 1 cut(s) 857
AsuHPI GGTGA 4 cut(s) 731, 962, 1103, 1165
AvaI CYCGRG 1 cut(s) 1012
AvaII GGWCC 2 cut(s) 782, 808
BanI GGYRCC 1 cut(s) 744
BanII GRGCYC 1 cut(s) 55
BauI CACGAG 1 cut(s) 236
BbsI GAAGAC 1 cut(s) 618
Bbv12I GWGCWC 1 cut(s) 55
BbvI GCAGC 5 cut(s) 235, 289, 292, 842, 909
BccI CCATC 2 cut(s) 58, 601
BceAI ACGGC 2 cut(s) 459, 491
BcgI CGANNNNNNTGC 2 cut(s) 227, 261
BciT130I CCWGG 1 cut(s) 716
BcnI CCSGG 1 cut(s) 857
BcoDI GTCTC 2 cut(s) 829, 972
BfmI CTRYAG 1 cut(s) 461
BfoI RGCGCY 1 cut(s) 475
BfrI CTTAAG 1 cut(s) 71
BfuAI ACCTGC 1 cut(s) 624
BisI GCNGC 5 cut(s) 249, 303, 306, 831, 923
BlsI GCNGC 5 cut(s) 250, 304, 307, 832, 924
Bme1390I CCNGG 2 cut(s) 716, 857
Bme18I GGWCC 2 cut(s) 782, 808
BmeT110I CYCGRG 1 cut(s) 1012
BmgT120I GGNCC 4 cut(s) 290, 782, 808, 931
BmiI GGNNCC 3 cut(s) 746, 809, 810
BmrFI CCNGG 2 cut(s) 716, 857
BmrI ACTGGG 1 cut(s) 202
BmsI GCATC 1 cut(s) 235
BmuI ACTGGG 1 cut(s) 202
BpiI GAAGAC 1 cut(s) 618
BpuEI CTTGAG 1 cut(s) 362
BpuMI CCSGG 1 cut(s) 857
BsaJI CCNNGG 1 cut(s) 714
BsaWI WCCGGW 1 cut(s) 741
BsaXI ACNNNNNCTCC 2 cut(s) 127, 157
Bsc4I CCNNNNNNNGG 3 cut(s) 213, 214, 622
Bse118I RCCGGY 1 cut(s) 741
Bse1I ACTGG 1 cut(s) 208
Bse3DI GCAATG 1 cut(s) 480
BseBI CCWGG 1 cut(s) 716
BseDI CCNNGG 1 cut(s) 714
BseLI CCNNNNNNNGG 3 cut(s) 213, 214, 622
BseMI GCAATG 1 cut(s) 480
BseMII CTCAG 3 cut(s) 825, 840, 1010
BseNI ACTGG 1 cut(s) 208
BseRI GAGGAG 5 cut(s) 112, 115, 118, 599, 973
BseXI GCAGC 5 cut(s) 235, 289, 292, 842, 909
BseYI CCCAGC 1 cut(s) 502
BshFI GGCC 3 cut(s) 291, 898, 933
BshNI GGYRCC 1 cut(s) 744
BshTI ACCGGT 1 cut(s) 741
BsiHKAI GWGCWC 1 cut(s) 55
BsiHKCI CYCGRG 1 cut(s) 1012
BsiSI CCGG 3 cut(s) 742, 785, 856
BslFI GGGAC 4 cut(s) 82, 266, 821, 1029
BslI CCNNNNNNNGG 3 cut(s) 213, 214, 622
BsmAI GTCTC 2 cut(s) 829, 972
BsmFI GGGAC 4 cut(s) 82, 266, 821, 1029
BsnI GGCC 3 cut(s) 291, 898, 933
BsoBI CYCGRG 1 cut(s) 1012
Bsp1286I GDGCHC 1 cut(s) 55
Bsp143I GATC 3 cut(s) 3, 1022, 1108
BspACI CCGC 2 cut(s) 664, 1058
BspANI GGCC 3 cut(s) 291, 898, 933
BspCNI CTCAG 3 cut(s) 826, 839, 1011
BspHI TCATGA 1 cut(s) 1066
BspLI GGNNCC 3 cut(s) 746, 809, 810
BspMAI CTGCAG 1 cut(s) 465
BspMI ACCTGC 1 cut(s) 624
BspPI GGATC 1 cut(s) 1116
BspT107I GGYRCC 1 cut(s) 744
BspTI CTTAAG 1 cut(s) 71
BsrDI GCAATG 1 cut(s) 480
BsrFI RCCGGY 1 cut(s) 741
BsrI ACTGG 1 cut(s) 208
BssAI RCCGGY 1 cut(s) 741
BssECI CCNNGG 1 cut(s) 714
BssMI GATC 3 cut(s) 3, 1022, 1108
BssSI CACGAG 1 cut(s) 236
Bst2BI CACGAG 1 cut(s) 236
Bst2UI CCWGG 1 cut(s) 716
Bst4CI ACNGT 2 cut(s) 753, 1087
Bst6I CTCTTC 4 cut(s) 840, 867, 1088, 1125
BstAFI CTTAAG 1 cut(s) 71
BstDEI CTNAG 4 cut(s) 425, 826, 834, 1019
BstEII GGTNACC 1 cut(s) 257
BstH2I RGCGCY 1 cut(s) 475
BstHHI GCGC 1 cut(s) 474
BstKTI GATC 3 cut(s) 6, 1025, 1111
BstMAI GTCTC 2 cut(s) 829, 972
BstMBI GATC 3 cut(s) 3, 1022, 1108
BstMWI GCNNNNNNNGC 2 cut(s) 469, 827
BstNI CCWGG 1 cut(s) 716
BstNSI RCATGY 1 cut(s) 1052
BstPI GGTNACC 1 cut(s) 257
BstSCI CCNGG 2 cut(s) 714, 855
BstSFI CTRYAG 1 cut(s) 461
BstV1I GCAGC 5 cut(s) 235, 289, 292, 842, 909
BstV2I GAAGAC 1 cut(s) 618
BsuRI GGCC 3 cut(s) 291, 898, 933
BveI ACCTGC 1 cut(s) 624
CaiI CAGNNNCTG 1 cut(s) 833
CciI TCATGA 1 cut(s) 1066
CfoI GCGC 1 cut(s) 474
Cfr10I RCCGGY 1 cut(s) 741
Cfr13I GGNCC 4 cut(s) 290, 782, 808, 931
Csp6I GTAC 3 cut(s) 442, 745, 1029
CspAI ACCGGT 1 cut(s) 741
CviAII CATG 3 cut(s) 278, 1049, 1067
CviQI GTAC 3 cut(s) 442, 745, 1029
DdeI CTNAG 4 cut(s) 425, 826, 834, 1019
DpnI GATC 3 cut(s) 5, 1024, 1110
DpnII GATC 3 cut(s) 3, 1022, 1108
DraI TTTAAA 3 cut(s) 492, 550, 760
Eam1104I CTCTTC 4 cut(s) 840, 867, 1088, 1125
EarI CTCTTC 4 cut(s) 840, 867, 1088, 1125
Ecl136II GAGCTC 1 cut(s) 53
Eco147I AGGCCT 1 cut(s) 898
Eco24I GRGCYC 1 cut(s) 55
Eco47I GGWCC 2 cut(s) 782, 808
Eco53kI GAGCTC 1 cut(s) 53
Eco57I CTGAAG 2 cut(s) 386, 864
Eco88I CYCGRG 1 cut(s) 1012
Eco91I GGTNACC 1 cut(s) 257
EcoICRI GAGCTC 1 cut(s) 53
EcoO109I RGGNCCY 2 cut(s) 808, 931
EcoO65I GGTNACC 1 cut(s) 257
EcoRII CCWGG 1 cut(s) 714
EcoT38I GRGCYC 1 cut(s) 55
FaeI CATG 3 cut(s) 281, 1052, 1070
FaqI GGGAC 4 cut(s) 82, 266, 821, 1029
FatI CATG 3 cut(s) 277, 1048, 1066
Fnu4HI GCNGC 5 cut(s) 249, 303, 306, 831, 923
FriOI GRGCYC 1 cut(s) 55
Fsp4HI GCNGC 5 cut(s) 249, 303, 306, 831, 923
GlaI GCGC 1 cut(s) 473
GluI GCNGC 5 cut(s) 249, 303, 306, 831, 923
GsaI CCCAGC 1 cut(s) 506
HaeII RGCGCY 1 cut(s) 475
HaeIII GGCC 3 cut(s) 291, 898, 933
HapII CCGG 3 cut(s) 742, 785, 856
HhaI GCGC 1 cut(s) 474
Hin1II CATG 3 cut(s) 281, 1052, 1070
Hin6I GCGC 1 cut(s) 472
HinP1I GCGC 1 cut(s) 472
HinfI GANTC 4 cut(s) 556, 667, 1078, 1174
HpaII CCGG 3 cut(s) 742, 785, 856
HphI GGTGA 4 cut(s) 731, 962, 1103, 1165
Hpy166II GTNNAC 1 cut(s) 34
Hpy188I TCNGA 3 cut(s) 8, 844, 1006
Hpy188III TCNNGA 9 cut(s) 48, 313, 379, 560, 725, 1014, 1067, 1127, 1171
Hpy8I GTNNAC 1 cut(s) 34
HpyAV CCTTC 5 cut(s) 93, 312, 521, 586, 871
HpyCH4III ACNGT 2 cut(s) 753, 1087
HpyCH4IV ACGT 1 cut(s) 342
HpyCH4V TGCA 5 cut(s) 135, 463, 544, 770, 821
HpyF10VI GCNNNNNNNGC 2 cut(s) 469, 827
HpyF3I CTNAG 4 cut(s) 425, 826, 834, 1019
HpySE526I ACGT 1 cut(s) 342
Hsp92II CATG 3 cut(s) 281, 1052, 1070
HspAI GCGC 1 cut(s) 472
KflI GGGWCCC 1 cut(s) 808
KpnI GGTACC 1 cut(s) 748
Kzo9I GATC 3 cut(s) 3, 1022, 1108
Lsp1109I GCAGC 5 cut(s) 235, 289, 292, 842, 909
LweI GCATC 1 cut(s) 235
MaeII ACGT 1 cut(s) 342
MaeIII GTNAC 3 cut(s) 257, 725, 737
MalI GATC 3 cut(s) 5, 1024, 1110
MboI GATC 3 cut(s) 3, 1022, 1108
MboII GAAGA 8 cut(s) 78, 143, 536, 623, 857, 884, 1105, 1142
MfeI CAATTG 1 cut(s) 1180
MhlI GDGCHC 1 cut(s) 55
MluCI AATT 6 cut(s) 452, 497, 545, 638, 794, 1180
MlyI GAGTC 2 cut(s) 550, 1087
MmeI TCCRAC 2 cut(s) 636, 654
MseI TTAA 7 cut(s) 41, 72, 491, 549, 759, 797, 1137
MslI CAYNNNNRTG 1 cut(s) 1053
MspA1I CMGCKG 1 cut(s) 833
MspCI CTTAAG 1 cut(s) 71
MspI CCGG 3 cut(s) 742, 785, 856
MspR9I CCNGG 2 cut(s) 716, 857
MunI CAATTG 1 cut(s) 1180
MvaI CCWGG 1 cut(s) 716
MwoI GCNNNNNNNGC 2 cut(s) 469, 827
NciI CCSGG 1 cut(s) 857
NdeII GATC 3 cut(s) 3, 1022, 1108
NlaIII CATG 3 cut(s) 281, 1052, 1070
NlaIV GGNNCC 3 cut(s) 746, 809, 810
NmuCI GTSAC 2 cut(s) 725, 737
NspI RCATGY 1 cut(s) 1052
PagI TCATGA 1 cut(s) 1066
PceI AGGCCT 1 cut(s) 898
PfeI GAWTC 2 cut(s) 667, 1174
PflFI GACNNNGTC 1 cut(s) 341
PinAI ACCGGT 1 cut(s) 741
PkrI GCNGC 5 cut(s) 250, 304, 307, 832, 924
PleI GAGTC 2 cut(s) 550, 1086
PpsI GAGTC 2 cut(s) 550, 1086
PpuMI RGGWCCY 1 cut(s) 808
Psp124BI GAGCTC 1 cut(s) 55
Psp5II RGGWCCY 1 cut(s) 808
Psp6I CCWGG 1 cut(s) 714
PspEI GGTNACC 1 cut(s) 257
PspFI CCCAGC 1 cut(s) 502
PspGI CCWGG 1 cut(s) 714
PspN4I GGNNCC 3 cut(s) 746, 809, 810
PspPI GGNCC 4 cut(s) 290, 782, 808, 931
PspPPI RGGWCCY 1 cut(s) 808
PsrI GAACNNNNNNTAC 2 cut(s) 737, 769
PstI CTGCAG 1 cut(s) 465
PstNI CAGNNNCTG 1 cut(s) 833
PsyI GACNNNGTC 1 cut(s) 341
PvuII CAGCTG 1 cut(s) 833
RsaI GTAC 3 cut(s) 443, 746, 1030
RsaNI GTAC 3 cut(s) 442, 745, 1029
RseI CAYNNNNRTG 1 cut(s) 1053
SacI GAGCTC 1 cut(s) 55
SaqAI TTAA 7 cut(s) 41, 72, 491, 549, 759, 797, 1137
SatI GCNGC 5 cut(s) 249, 303, 306, 831, 923
Sau3AI GATC 3 cut(s) 3, 1022, 1108
Sau96I GGNCC 4 cut(s) 290, 782, 808, 931
SchI GAGTC 2 cut(s) 550, 1087
ScrFI CCNGG 2 cut(s) 716, 857
SduI GDGCHC 1 cut(s) 55
SfaNI GCATC 1 cut(s) 235
SfcI CTRYAG 1 cut(s) 461
SinI GGWCC 2 cut(s) 782, 808
SmiMI CAYNNNNRTG 1 cut(s) 1053
SmlI CTYRAG 2 cut(s) 71, 377
SmoI CTYRAG 2 cut(s) 71, 377
Sse9I AATT 6 cut(s) 452, 497, 545, 638, 794, 1180
SseBI AGGCCT 1 cut(s) 898
SsiI CCGC 2 cut(s) 664, 1058
SstI GAGCTC 1 cut(s) 55
StuI AGGCCT 1 cut(s) 898
StyD4I CCNGG 2 cut(s) 714, 855
TaaI ACNGT 2 cut(s) 753, 1087
TaiI ACGT 1 cut(s) 345
TaqI TCGA 2 cut(s) 47, 1126
TasI AATT 6 cut(s) 452, 497, 545, 638, 794, 1180
TfiI GAWTC 2 cut(s) 667, 1174
Tru1I TTAA 7 cut(s) 41, 72, 491, 549, 759, 797, 1137
Tru9I TTAA 7 cut(s) 41, 72, 491, 549, 759, 797, 1137
TseFI GTSAC 2 cut(s) 725, 737
TseI GCWGC 5 cut(s) 248, 302, 305, 830, 922
Tsp45I GTSAC 2 cut(s) 725, 737
TspDTI ATGAA 2 cut(s) 469, 1055
Tth111I GACNNNGTC 1 cut(s) 341
Vha464I CTTAAG 1 cut(s) 71
VpaK11BI GGWCC 2 cut(s) 782, 808
XapI RAATTY 1 cut(s) 497
XceI RCATGY 1 cut(s) 1052
XcmI CCANNNNNNNNNTGG 1 cut(s) 284
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.