pycom01g19550

Pentatricopeptide repeat-containing protein At4g25270

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr1
OG0015204
Physical Location & Seq
Forward (+)
18202977 .. 18204239
1263 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom01g19550.1

Sequence Viewer

Length: 1263 bp
ATGGAGTATGGCCACCGGGTTCATAAGCTTATTCCCAGAAGCATTTTGCGTCGAAATGTAGGCCTCTCGTCGAAGCTGCTTAGACTTTATGCTGCAAGTGGGCGTATGGAGGAGGCGCACAAGGTGTTTGATGAAATGCCTAAGAGGGACGTGTCGGCTTTCGCATGGAATGCGCTTATTTCGGGGTATGCTGAATTGGGTTTGTACGAGGATGCTATGGCGTTGTACTTTCAAATGGAGGAAGAGGGAGTTGAACCCGACCGGTTCACGTTCCCTCGAGTTTTGAAAGCTTGTGGGGGAATTGGGTTCATTCAGATCGGTGAGGCTGTGCATCGGCATGTTGTGCGTTTGGGTTTGTTGAATGATAGGTTTGTGCTTAATGCACTGGTGGACATGTATGCCAAATGTGGCGACATTGTGAAGGCTCGGAAAGTGTTCGATAAGATTTCTGGTCGGGACAAGGTTTCTTGGAACACAATGCTCACCAGTTATATGCGTCATGGGCTTTTGCTGCAGGCGCTGGACATCTTTCGCCAAATGTTTGATGAAGGGTACCAGCCGGATTCTGTTTCTGTATCCTCAATCCTTGCTGTGGTTCAATCATTACAGCTTGTAGTTCAAATACACGGATGGGTAATTAGGAGAGGAGTTGAGTGGAACTTGTCCATCGCCAATGCCTTGATTTCTGCATATTCTAAACATCACAAGTTGAATCGAGCGCGATGGTTATTTAGTCATATGCCGGAGAGGGATGTCGTAACATGGAATACAATCATTTCAGCTCATTCTAAAAGCCGGGAAGCCTTGCTGTATTTTGATCAGATGGAGAAGGATGGTGCTTTGCCAGACAATATCACATTTGTGTCAATCTTATCGGCTTGCGCTAATTTATGTTTGGTGAAGGACGGCCAGAGGCTATATTCTGTCATGAAAAATAGATACAGAATTAGTCCAATTATGGAGCATTATGCTTGCATGGTGAATCTTTACGGAAGGTCAGGTCGGATCAAAGAAGCTTATGGGATCATAACAGATGGAATGGAGTTCGAGGCTGGTCCAACGGTATGGGGTGCATTGCTGTATGCTTGCTACCTTCACAACAATGCTGATGTCGGGGAGGTTGCTGCGGAGAAGCTTTTCGATTTGGAGCCGGATAATGAGTATAATTTCGAGCTTTTGATGAAGATTTATGGCAATGTGAGTCGGTTGGAGGATGTGGAGAGAGTGAGATTGATGATGATGGATAGAGGATTGGACTCATAG

Protein Analysis

421

Amino Acids

47.98

Weight (kDa)

6.9

Isoelectric Point (pI)

41.35

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 53 - 98 3.8e-10 PPR repeat family
PPR PF01535 55 - 84 1e-07 PPR repeat
PPR_2 PF13041 153 - 196 2.4e-09 PPR repeat family
PPR PF01535 155 - 184 1.7e-06 PPR repeat
PPR_2 PF13041 250 - 296 6.2e-09 PPR repeat family
E_motif PF20431 366 - 417 1.6e-08 E motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0015204)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G25270
fragaria_vesca FvH4_7g27870
malus_domestica MD00G1104900.v1.1
prunus_persica Prupe.2G280000_v2.0.a1
pyrus_communis pycom01g19550
rosa_chinensis RchiOBHm_Chr1g0374811
rosa_laevigata RLG00000026713
rosa_multiflora Rmu_co8506051.1_g000002 Rmu_sc0004947.1_g000023
rosa_roxburghii Rroxscaffold_4G00283250
rosa_rugosa Rorug01G0385000
rosa_samantha Rh1AG396500 Rh1BG360600 Rh1CG374000 Rh1DG391400
rosa_wichuraiana Rw1G035150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 552
AccB1I GGYRCC 1 cut(s) 552
AccII CGCG 1 cut(s) 721
AciI CCGC 1 cut(s) 1127
AclWI GGATC 2 cut(s) 1013, 1031
AcoI YGGCCR 2 cut(s) 10, 907
AdeI CACNNNGTG 1 cut(s) 124
AfaI GTAC 3 cut(s) 206, 227, 554
AfiI CCNNNNNNNGG 1 cut(s) 592
AflIII ACRYGT 2 cut(s) 150, 393
AgeI ACCGGT 1 cut(s) 261
AgsI TTSAA 7 cut(s) 233, 254, 286, 361, 599, 620, 712
AjiI CACGTC 1 cut(s) 151
AleI CACNNNNGTG 1 cut(s) 860
AluBI AGCT 8 cut(s) 28, 76, 290, 610, 782, 1016, 1135, 1174
AluI AGCT 8 cut(s) 28, 76, 290, 610, 782, 1016, 1135, 1174
AlwI GGATC 2 cut(s) 1013, 1031
AlwNI CAGNNNCTG 1 cut(s) 520
Ama87I CYCGRG 1 cut(s) 276
AoxI GGCC 3 cut(s) 10, 61, 907
ApeKI GCWGC 4 cut(s) 76, 92, 511, 1124
AsiGI ACCGGT 1 cut(s) 261
Asp700I GAANNNNTTC 2 cut(s) 434, 1136
Asp718I GGTACC 1 cut(s) 552
AspLEI GCGC 5 cut(s) 118, 175, 520, 721, 884
AspS9I GGNCC 1 cut(s) 1055
AsuC2I CCSGG 2 cut(s) 17, 797
AsuHPI GGTGA 4 cut(s) 332, 475, 910, 991
AvaI CYCGRG 1 cut(s) 276
AvaII GGWCC 1 cut(s) 1055
BalI TGGCCA 1 cut(s) 12
BanI GGYRCC 1 cut(s) 552
BbvI GCAGC 4 cut(s) 63, 79, 498, 1111
BccI CCATC 7 cut(s) 624, 674, 717, 817, 827, 1028, 1234
BceAI ACGGC 1 cut(s) 922
BciVI GTATCC 1 cut(s) 586
BclI TGATCA 1 cut(s) 817
BcnI CCSGG 2 cut(s) 17, 797
BfmI CTRYAG 1 cut(s) 512
BfoI RGCGCY 1 cut(s) 521
BfuI GTATCC 1 cut(s) 586
BisI GCNGC 4 cut(s) 77, 93, 512, 1125
BlsI GCNGC 4 cut(s) 78, 94, 513, 1126
Bme1390I CCNGG 2 cut(s) 17, 797
Bme18I GGWCC 1 cut(s) 1055
BmeT110I CYCGRG 1 cut(s) 276
BmgBI CACGTC 1 cut(s) 151
BmgT120I GGNCC 1 cut(s) 1055
BmiI GGNNCC 2 cut(s) 554, 1149
BmrFI CCNGG 2 cut(s) 17, 797
BmsI GCATC 2 cut(s) 202, 340
BpuMI CCSGG 2 cut(s) 17, 797
BsaWI WCCGGW 1 cut(s) 261
Bsc4I CCNNNNNNNGG 1 cut(s) 592
Bse118I RCCGGY 1 cut(s) 261
Bse1I ACTGG 2 cut(s) 390, 486
Bse3DI GCAATG 2 cut(s) 1073, 1201
BseGI GGATG 5 cut(s) 217, 635, 757, 838, 1219
BseLI CCNNNNNNNGG 1 cut(s) 592
BseMI GCAATG 2 cut(s) 1073, 1201
BseNI ACTGG 2 cut(s) 390, 486
BseRI GAGGAG 2 cut(s) 125, 660
BseXI GCAGC 4 cut(s) 63, 79, 498, 1111
Bsh1236I CGCG 1 cut(s) 721
Bsh1285I CGRYCG 1 cut(s) 262
BshFI GGCC 3 cut(s) 12, 63, 909
BshNI GGYRCC 1 cut(s) 552
BshTI ACCGGT 1 cut(s) 261
BsiEI CGRYCG 1 cut(s) 262
BsiHKCI CYCGRG 1 cut(s) 276
BsiSI CCGG 6 cut(s) 16, 262, 560, 743, 796, 1151
BslFI GGGAC 2 cut(s) 161, 470
BslI CCNNNNNNNGG 1 cut(s) 592
BsmFI GGGAC 2 cut(s) 161, 470
BsmI GAATGC 1 cut(s) 175
BsnI GGCC 3 cut(s) 12, 63, 909
BsoBI CYCGRG 1 cut(s) 276
Bsp143I GATC 4 cut(s) 315, 817, 1005, 1023
BspACI CCGC 1 cut(s) 1127
BspANI GGCC 3 cut(s) 12, 63, 909
BspFNI CGCG 1 cut(s) 721
BspHI TCATGA 1 cut(s) 927
BspLI GGNNCC 2 cut(s) 554, 1149
BspMAI CTGCAG 1 cut(s) 516
BspPI GGATC 2 cut(s) 1013, 1031
BspT107I GGYRCC 1 cut(s) 552
BsrDI GCAATG 2 cut(s) 1073, 1201
BsrFI RCCGGY 1 cut(s) 261
BsrI ACTGG 2 cut(s) 390, 486
BssAI RCCGGY 1 cut(s) 261
BssMI GATC 4 cut(s) 315, 817, 1005, 1023
Bst4CI ACNGT 1 cut(s) 1063
Bst6I CTCTTC 1 cut(s) 237
BstAPI GCANNNNNTGC 2 cut(s) 170, 343
BstC8I GCNNGC 4 cut(s) 516, 880, 973, 1087
BstDEI CTNAG 2 cut(s) 80, 141
BstF5I GGATG 5 cut(s) 217, 635, 757, 838, 1219
BstFNI CGCG 1 cut(s) 721
BstH2I RGCGCY 1 cut(s) 521
BstHHI GCGC 5 cut(s) 118, 175, 520, 721, 884
BstKTI GATC 4 cut(s) 318, 820, 1008, 1026
BstMBI GATC 4 cut(s) 315, 817, 1005, 1023
BstMCI CGRYCG 1 cut(s) 262
BstMWI GCNNNNNNNGC 5 cut(s) 170, 343, 502, 511, 517
BstNSI RCATGY 2 cut(s) 341, 397
BstSCI CCNGG 2 cut(s) 15, 795
BstSFI CTRYAG 1 cut(s) 512
BstUI CGCG 1 cut(s) 721
BstV1I GCAGC 4 cut(s) 63, 79, 498, 1111
BstXI CCANNNNNNTGG 1 cut(s) 1065
BsuI GTATCC 1 cut(s) 586
BsuRI GGCC 3 cut(s) 12, 63, 909
BtgZI GCGATG 2 cut(s) 652, 736
BtrI CACGTC 1 cut(s) 151
BtsCI GGATG 5 cut(s) 217, 635, 757, 838, 1219
BtsIMutI CAGTG 1 cut(s) 383
Cac8I GCNNGC 4 cut(s) 516, 880, 973, 1087
CaiI CAGNNNCTG 1 cut(s) 520
CciI TCATGA 1 cut(s) 927
CfoI GCGC 5 cut(s) 118, 175, 520, 721, 884
Cfr10I RCCGGY 1 cut(s) 261
Cfr13I GGNCC 1 cut(s) 1055
CseI GACGC 2 cut(s) 38, 485
Csp6I GTAC 3 cut(s) 205, 226, 553
CspAI ACCGGT 1 cut(s) 261
CviAII CATG 7 cut(s) 165, 338, 394, 500, 762, 928, 976
CviQI GTAC 3 cut(s) 205, 226, 553
DdeI CTNAG 2 cut(s) 80, 141
DpnI GATC 4 cut(s) 317, 819, 1007, 1025
DpnII GATC 4 cut(s) 315, 817, 1005, 1023
DraIII CACNNNGTG 1 cut(s) 124
EaeI YGGCCR 2 cut(s) 10, 907
Eam1104I CTCTTC 1 cut(s) 237
EarI CTCTTC 1 cut(s) 237
Eco147I AGGCCT 1 cut(s) 63
Eco47I GGWCC 1 cut(s) 1055
Eco88I CYCGRG 1 cut(s) 276
FaeI CATG 7 cut(s) 168, 341, 397, 503, 765, 931, 979
FaqI GGGAC 2 cut(s) 161, 470
FatI CATG 7 cut(s) 164, 337, 393, 499, 761, 927, 975
FauNDI CATATG 1 cut(s) 738
FbaI TGATCA 1 cut(s) 817
Fnu4HI GCNGC 4 cut(s) 77, 93, 512, 1125
FokI GGATG 5 cut(s) 224, 642, 764, 845, 1226
Fsp4HI GCNGC 4 cut(s) 77, 93, 512, 1125
GlaI GCGC 5 cut(s) 117, 174, 519, 720, 883
GluI GCNGC 4 cut(s) 77, 93, 512, 1125
HaeII RGCGCY 1 cut(s) 521
HaeIII GGCC 3 cut(s) 12, 63, 909
HapII CCGG 6 cut(s) 16, 262, 560, 743, 796, 1151
HgaI GACGC 2 cut(s) 38, 485
HhaI GCGC 5 cut(s) 118, 175, 520, 721, 884
Hin1II CATG 7 cut(s) 168, 341, 397, 503, 765, 931, 979
Hin6I GCGC 5 cut(s) 116, 173, 518, 719, 882
HinP1I GCGC 5 cut(s) 116, 173, 518, 719, 882
HindIII AAGCTT 4 cut(s) 26, 288, 1014, 1133
HinfI GANTC 5 cut(s) 563, 712, 982, 1201, 1256
HpaII CCGG 6 cut(s) 16, 262, 560, 743, 796, 1151
HphI GGTGA 4 cut(s) 332, 475, 910, 991
Hpy166II GTNNAC 2 cut(s) 267, 391
Hpy188I TCNGA 4 cut(s) 315, 429, 822, 1005
Hpy188III TCNNGA 2 cut(s) 455, 928
Hpy8I GTNNAC 2 cut(s) 267, 391
Hpy99I CGWCG 2 cut(s) 54, 73
HpyAV CCTTC 6 cut(s) 415, 542, 823, 895, 987, 1103
HpyCH4III ACNGT 1 cut(s) 1063
HpyCH4IV ACGT 2 cut(s) 150, 269
HpyCH4V TGCA 7 cut(s) 95, 331, 383, 514, 689, 975, 1073
HpyF10VI GCNNNNNNNGC 5 cut(s) 170, 343, 502, 511, 517
HpyF3I CTNAG 2 cut(s) 80, 141
HpySE526I ACGT 2 cut(s) 150, 269
Hsp92II CATG 7 cut(s) 168, 341, 397, 503, 765, 931, 979
HspAI GCGC 5 cut(s) 116, 173, 518, 719, 882
KpnI GGTACC 1 cut(s) 556
Ksp22I TGATCA 1 cut(s) 817
Kzo9I GATC 4 cut(s) 315, 817, 1005, 1023
LmnI GCTCC 2 cut(s) 961, 1147
Lsp1109I GCAGC 4 cut(s) 63, 79, 498, 1111
LweI GCATC 2 cut(s) 202, 340
MaeII ACGT 2 cut(s) 150, 269
MaeIII GTNAC 1 cut(s) 757
MalI GATC 4 cut(s) 317, 819, 1007, 1025
MboI GATC 4 cut(s) 315, 817, 1005, 1023
MboII GAAGA 2 cut(s) 254, 1195
MlsI TGGCCA 1 cut(s) 12
MluCI AATT 7 cut(s) 194, 300, 636, 886, 945, 954, 1165
MluNI TGGCCA 1 cut(s) 12
MlyI GAGTC 2 cut(s) 1210, 1250
MmeI TCCRAC 3 cut(s) 983, 1082, 1188
Mox20I TGGCCA 1 cut(s) 12
MroXI GAANNNNTTC 2 cut(s) 434, 1136
MscI TGGCCA 1 cut(s) 12
MseI TTAA 1 cut(s) 378
MslI CAYNNNNRTG 3 cut(s) 336, 860, 1101
Msp20I TGGCCA 1 cut(s) 12
MspI CCGG 6 cut(s) 16, 262, 560, 743, 796, 1151
MspR9I CCNGG 2 cut(s) 17, 797
Mva1269I GAATGC 1 cut(s) 175
MvnI CGCG 1 cut(s) 721
MwoI GCNNNNNNNGC 5 cut(s) 170, 343, 502, 511, 517
NciI CCSGG 2 cut(s) 17, 797
NdeI CATATG 1 cut(s) 738
NdeII GATC 4 cut(s) 315, 817, 1005, 1023
NlaIII CATG 7 cut(s) 168, 341, 397, 503, 765, 931, 979
NlaIV GGNNCC 2 cut(s) 554, 1149
NspI RCATGY 2 cut(s) 341, 397
OliI CACNNNNGTG 1 cut(s) 860
PaeR7I CTCGAG 1 cut(s) 276
PagI TCATGA 1 cut(s) 927
PceI AGGCCT 1 cut(s) 63
PciI ACATGT 1 cut(s) 393
PctI GAATGC 1 cut(s) 175
PdmI GAANNNNTTC 2 cut(s) 434, 1136
PfeI GAWTC 3 cut(s) 563, 712, 982
PinAI ACCGGT 1 cut(s) 261
PkrI GCNGC 4 cut(s) 78, 94, 513, 1126
PleI GAGTC 2 cut(s) 1209, 1250
PpsI GAGTC 2 cut(s) 1209, 1250
PscI ACATGT 1 cut(s) 393
PspN4I GGNNCC 2 cut(s) 554, 1149
PspPI GGNCC 1 cut(s) 1055
PspXI VCTCGAGB 1 cut(s) 276
PstI CTGCAG 1 cut(s) 516
PstNI CAGNNNCTG 1 cut(s) 520
RsaI GTAC 3 cut(s) 206, 227, 554
RsaNI GTAC 3 cut(s) 205, 226, 553
RseI CAYNNNNRTG 3 cut(s) 336, 860, 1101
SaqAI TTAA 1 cut(s) 378
SatI GCNGC 4 cut(s) 77, 93, 512, 1125
Sau3AI GATC 4 cut(s) 315, 817, 1005, 1023
Sau96I GGNCC 1 cut(s) 1055
SchI GAGTC 2 cut(s) 1210, 1250
ScrFI CCNGG 2 cut(s) 17, 797
SfaNI GCATC 2 cut(s) 202, 340
SfcI CTRYAG 1 cut(s) 512
Sfr274I CTCGAG 1 cut(s) 276
SinI GGWCC 1 cut(s) 1055
SlaI CTCGAG 1 cut(s) 276
SmiMI CAYNNNNRTG 3 cut(s) 336, 860, 1101
SmlI CTYRAG 1 cut(s) 276
SmoI CTYRAG 1 cut(s) 276
Sse9I AATT 7 cut(s) 194, 300, 636, 886, 945, 954, 1165
SseBI AGGCCT 1 cut(s) 63
SsiI CCGC 1 cut(s) 1127
StuI AGGCCT 1 cut(s) 63
StyD4I CCNGG 2 cut(s) 15, 795
TaaI ACNGT 1 cut(s) 1063
TaiI ACGT 2 cut(s) 153, 272
TaqI TCGA 8 cut(s) 52, 71, 277, 438, 715, 1047, 1140, 1170
TasI AATT 7 cut(s) 194, 300, 636, 886, 945, 954, 1165
TatI WGTACW 1 cut(s) 225
TfiI GAWTC 3 cut(s) 563, 712, 982
Tru1I TTAA 1 cut(s) 378
Tru9I TTAA 1 cut(s) 378
TscAI CASTG 1 cut(s) 390
TseI GCWGC 4 cut(s) 76, 92, 511, 1124
TspDTI ATGAA 6 cut(s) 11, 147, 298, 561, 944, 1196
TspGWI ACGGA 2 cut(s) 642, 1005
TspRI CASTG 1 cut(s) 390
VpaK11BI GGWCC 1 cut(s) 1055
XceI RCATGY 2 cut(s) 341, 397
XhoI CTCGAG 1 cut(s) 276
XmnI GAANNNNTTC 2 cut(s) 434, 1136
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.