RLG00000019521

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr4
OG0006290
Physical Location & Seq
Reverse (-)
53090860 .. 53092437
1578 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000019521

Sequence Viewer

Length: 1578 bp
ATGTCACTTAGATCTGTCACCCTTAAACCCAAAACCCTCCACGTTTTCTTCAACTCTCTTCTCCGACCCACCAAACCCAACACTCCCTTCCACCCCTTCTCTTCTCTCACCCACCAAAACCCACCATCTCCACAATTACCTCACCTGGTCAACGAAATCTCACGCATTCTCAGCGACCACAGAAACCCTCACCACGACTTGGAGCTTTCCCTCAGCTCTTGGTCCACCCAAATATCCCCAAACTTGGTTGAACAGGTTCTGAAACGCTGCAAACATCTTGGGTTCTCAGCCCACAGATTCTTTCTCTGGGCTAAAACAATTCCGGGGTTTCAACACAGTGATGAAAGCCATCACATTTTGATTGATATTTTGGGGAGTAGTGGTCAGTTTGCTCTGTTGTGGGATTTTCTTATTGATATGAGAGAATCCAAGTGTTGTGAGATTAGCCCAGAATTGTTCTGGGTTATTTTTAGAGTTTACAGTAGAGCTAATTTGCCTCGTGATGCGATTCGAGCTTTTAATAGAATGGTTGAGTTTGGAATCAAGCCTAGTGTCCATGATCTTGATCAGCTTCTCTATACATTATGTAAAAGAAAGCATGTCAAGCATGCCCAGGAGTTTTTTGATAAAGTCAAGAGTGGGTTTGAGTTGGGTGCTAAAACTTATAGCATTTTGATGAGGGGTTGGGGAGACATTTGTGATTCGGATAATGCACGCAAGCTGTTCGATGAAATGACTGAAAGAGGGTGTTTTGTGGATGTGCCTGCATATAATAGTTATTTGGAGGCTTTGTGTAAAGGTGGGAATGTAGATGAGGCTTATAAGATACTCCGGGAGATGGGTTCAAAAGGAGTTGAGCCAGATGCTGGTACATACTCGATTTTCATTCGGGCATATTGTGAAGCCAATGATATTCATTCGGTTTTTAGCGTGCTTGATAGGATGAAGAGATATAATCTTTTGCCTAATGTGTATTCTTACAATTGTATCATCAAGAAGCTGTGTAAGAATGAAAAGGTGGAAGAGGCGTACCAACTTTTGGATGAAATGATCGAAATGGGAGTTAAGCCGGATGAATGGAGTTACAATGCAATCCAAGCTTATCATTGTGAGCATTGTGAAGTTAATCAGGCTCTTAGGTTGTTGTCTAGAATGGAAAAAGATAACTGCATGCCAGATCGGCATACTTACAATATGGTACTAAAGTTGCTGATCAGGATCGGAAGATTTGATAGGGCAACTGAAGTGTGGGAGAGTATGGGGAAGAGAGGCTTTTATCCTTCTGTTTCAACATATTCTGTCATGATTCATGGTTTGTGCAAAAAGAAACACAAACTAGAGGAGGCATGTAAATACTTTGAGATAATGATTGATGAAGGTATACCACCATACTCTTCTACAGTGGAGATGTTGAGAAACCGGCTCATGGGTTTGGGGCTACTTGATGAAATTGAAATACTTGCTAGTAAGATGGAGCAAAGCACTTCCTGCTCAATACAAGAGTTCGCAAAAGTTCTGAGAGGGAACAAAGCTTCTGTAAGATCGAGAAGTGAGTACACTGACATTGAAAGTGATTGA

Protein Analysis

526

Amino Acids

60.7

Weight (kDa)

7.28

Isoelectric Point (pI)

41.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_long PF17177 236 - 364 9.1e-12 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 240 - 299 5.9e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 248 - 280 1.2e-07 PPR repeat
PPR_2 PF13041 253 - 300 8.4e-15 PPR repeat family
PPR PF01535 256 - 285 7e-06 PPR repeat
PPR_3 PF13812 275 - 334 1.9e-11 Pentatricopeptide repeat domain
PPR_1 PF12854 283 - 316 9.3e-07 PPR repeat
PPR_2 PF13041 291 - 336 6.1e-12 PPR repeat family
PPR_3 PF13812 310 - 365 3e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 319 - 350 1.5e-11 PPR repeat
PPR_2 PF13041 322 - 364 2.2e-14 PPR repeat family
PPR PF01535 325 - 355 1.2e-07 PPR repeat
PPR_3 PF13812 346 - 403 2.4e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 361 - 404 1.4e-09 PPR repeat family
PPR_3 PF13812 380 - 437 6.6e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 396 - 441 4e-13 PPR repeat family
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)
AanI TTATAA 1 cut(s) 822
AccB7I CCANNNNNTGG 3 cut(s) 199, 866, 1039
AccI GTMKAC 1 cut(s) 1381
AclWI GGATC 1 cut(s) 1226
AcuI CTGAAG 1 cut(s) 1263
AfaI GTAC 4 cut(s) 871, 1031, 1200, 1556
AfiI CCNNNNNNNGG 6 cut(s) 199, 244, 838, 866, 1039, 1426
AgsI TTSAA 7 cut(s) 52, 251, 332, 846, 1290, 1454, 1568
AjnI CCWGG 2 cut(s) 144, 612
AjuI GAANNNNNNNTTGG 2 cut(s) 71, 103
AluBI AGCT 9 cut(s) 205, 216, 488, 515, 571, 721, 1000, 1100, 1532
AluI AGCT 9 cut(s) 205, 216, 488, 515, 571, 721, 1000, 1100, 1532
Alw26I GTCTC 1 cut(s) 684
AlwI GGATC 1 cut(s) 1226
AlwNI CAGNNNCTG 2 cut(s) 259, 866
ApeKI GCWGC 1 cut(s) 267
Asp700I GAANNNNTTC 1 cut(s) 255
AspS9I GGNCC 1 cut(s) 222
AsuC2I CCSGG 2 cut(s) 324, 833
AsuHPI GGTGA 4 cut(s) 10, 100, 134, 182
AvaII GGWCC 1 cut(s) 222
BaeI ACNNNNGTAYC 4 cut(s) 970, 1003, 1190, 1223
BauI CACGAG 1 cut(s) 498
BbvCI CCTCAGC 1 cut(s) 212
BbvI GCAGC 1 cut(s) 254
BccI CCATC 4 cut(s) 133, 357, 832, 1465
BcgI CGANNNNNNTGC 2 cut(s) 706, 740
BciT130I CCWGG 2 cut(s) 146, 614
BclI TGATCA 2 cut(s) 565, 1212
BcnI CCSGG 2 cut(s) 324, 833
BcoDI GTCTC 1 cut(s) 684
BfaI CTAG 4 cut(s) 549, 1149, 1337, 1464
BfmI CTRYAG 1 cut(s) 1398
BglI GCCNNNNNGGC 1 cut(s) 1180
BglII AGATCT 1 cut(s) 11
BisI GCNGC 1 cut(s) 268
BlsI GCNGC 1 cut(s) 269
Bme1390I CCNGG 4 cut(s) 146, 324, 614, 833
Bme18I GGWCC 1 cut(s) 222
BmgT120I GGNCC 1 cut(s) 222
BmrFI CCNGG 4 cut(s) 146, 324, 614, 833
BmsI GCATC 2 cut(s) 493, 853
Bpu10I CCTNAGC 1 cut(s) 212
BpuMI CCSGG 2 cut(s) 324, 833
BsaBI GATNNNNATC 2 cut(s) 564, 1217
BsaJI CCNNGG 2 cut(s) 323, 612
BsaXI ACNNNNNCTCC 4 cut(s) 367, 397, 776, 806
Bsc4I CCNNNNNNNGG 6 cut(s) 199, 244, 838, 866, 1039, 1426
Bse118I RCCGGY 1 cut(s) 1419
Bse8I GATNNNNATC 2 cut(s) 564, 1217
BseBI CCWGG 2 cut(s) 146, 614
BseDI CCNNGG 2 cut(s) 323, 612
BseGI GGATG 4 cut(s) 763, 948, 1048, 1078
BseJI GATNNNNATC 2 cut(s) 564, 1217
BseLI CCNNNNNNNGG 6 cut(s) 199, 244, 838, 866, 1039, 1426
BseMII CTCAG 4 cut(s) 184, 226, 300, 1508
BseRI GAGGAG 1 cut(s) 1355
BseXI GCAGC 1 cut(s) 254
BsiSI CCGG 4 cut(s) 323, 832, 1070, 1420
BslI CCNNNNNNNGG 6 cut(s) 199, 244, 838, 866, 1039, 1426
BsmAI GTCTC 1 cut(s) 684
BsmI GAATGC 1 cut(s) 165
Bsp143I GATC 8 cut(s) 11, 559, 565, 1050, 1177, 1212, 1218, 1541
BspCNI CTCAG 4 cut(s) 183, 225, 299, 1509
BspHI TCATGA 1 cut(s) 1302
BspPI GGATC 1 cut(s) 1226
BsrFI RCCGGY 1 cut(s) 1419
BssAI RCCGGY 1 cut(s) 1419
BssECI CCNNGG 2 cut(s) 323, 612
BssMI GATC 8 cut(s) 11, 559, 565, 1050, 1177, 1212, 1218, 1541
BssNAI GTATAC 1 cut(s) 1382
BssSI CACGAG 1 cut(s) 498
Bst1107I GTATAC 1 cut(s) 1382
Bst2BI CACGAG 1 cut(s) 498
Bst2UI CCWGG 2 cut(s) 146, 614
Bst4CI ACNGT 3 cut(s) 338, 482, 1402
Bst6I CTCTTC 6 cut(s) 63, 106, 941, 1017, 1259, 1399
BstAPI GCANNNNNTGC 1 cut(s) 1488
BstC8I GCNNGC 6 cut(s) 609, 715, 719, 765, 932, 1172
BstDEI CTNAG 6 cut(s) 8, 170, 212, 286, 1136, 1517
BstF5I GGATG 4 cut(s) 763, 948, 1048, 1078
BstKTI GATC 8 cut(s) 14, 562, 568, 1053, 1180, 1215, 1221, 1544
BstMAI GTCTC 1 cut(s) 684
BstMBI GATC 8 cut(s) 11, 559, 565, 1050, 1177, 1212, 1218, 1541
BstMWI GCNNNNNNNGC 6 cut(s) 171, 512, 604, 1097, 1180, 1488
BstNI CCWGG 2 cut(s) 146, 614
BstNSI RCATGY 4 cut(s) 602, 611, 1174, 1350
BstSCI CCNGG 4 cut(s) 144, 322, 612, 831
BstSFI CTRYAG 1 cut(s) 1398
BstV1I GCAGC 1 cut(s) 254
BstX2I RGATCY 1 cut(s) 11
BstYI RGATCY 1 cut(s) 11
BstZ17I GTATAC 1 cut(s) 1382
BtsCI GGATG 4 cut(s) 763, 948, 1048, 1078
BtsIMutI CAGTG 3 cut(s) 343, 1407, 1557
Cac8I GCNNGC 6 cut(s) 609, 715, 719, 765, 932, 1172
CaiI CAGNNNCTG 2 cut(s) 259, 866
CciI TCATGA 1 cut(s) 1302
Cfr10I RCCGGY 1 cut(s) 1419
Cfr13I GGNCC 1 cut(s) 222
CsiI ACCWGGT 1 cut(s) 144
Csp6I GTAC 4 cut(s) 870, 1030, 1199, 1555
CviAII CATG 8 cut(s) 557, 599, 608, 1171, 1303, 1310, 1347, 1426
CviQI GTAC 4 cut(s) 870, 1030, 1199, 1555
DdeI CTNAG 6 cut(s) 8, 170, 212, 286, 1136, 1517
DpnI GATC 8 cut(s) 13, 561, 567, 1052, 1179, 1214, 1220, 1543
DpnII GATC 8 cut(s) 11, 559, 565, 1050, 1177, 1212, 1218, 1541
Eam1104I CTCTTC 6 cut(s) 63, 106, 941, 1017, 1259, 1399
EarI CTCTTC 6 cut(s) 63, 106, 941, 1017, 1259, 1399
Eco47I GGWCC 1 cut(s) 222
Eco57I CTGAAG 1 cut(s) 1263
EcoRII CCWGG 2 cut(s) 144, 612
FaeI CATG 8 cut(s) 560, 602, 611, 1174, 1306, 1313, 1350, 1429
FalI AAGNNNNNCTT 2 cut(s) 1256, 1288
FatI CATG 8 cut(s) 556, 598, 607, 1170, 1302, 1309, 1346, 1425
FbaI TGATCA 2 cut(s) 565, 1212
FblI GTMKAC 1 cut(s) 1381
Fnu4HI GCNGC 1 cut(s) 268
FokI GGATG 4 cut(s) 770, 955, 1055, 1085
Fsp4HI GCNGC 1 cut(s) 268
FspBI CTAG 4 cut(s) 549, 1149, 1337, 1464
GluI GCNGC 1 cut(s) 268
HapII CCGG 4 cut(s) 323, 832, 1070, 1420
Hin1II CATG 8 cut(s) 560, 602, 611, 1174, 1306, 1313, 1350, 1429
HincII GTYRAC 1 cut(s) 151
HindII GTYRAC 1 cut(s) 151
HindIII AAGCTT 2 cut(s) 1098, 1530
HinfI GANTC 6 cut(s) 297, 425, 508, 540, 701, 1306
HpaII CCGG 4 cut(s) 323, 832, 1070, 1420
HphI GGTGA 4 cut(s) 10, 100, 134, 182
Hpy166II GTNNAC 5 cut(s) 151, 225, 478, 1382, 1557
Hpy188I TCNGA 5 cut(s) 65, 261, 706, 1223, 1518
Hpy188III TCNNGA 8 cut(s) 500, 563, 634, 994, 1149, 1216, 1303, 1545
Hpy8I GTNNAC 5 cut(s) 151, 225, 478, 1382, 1557
HpyAV CCTTC 4 cut(s) 97, 106, 1290, 1370
HpyCH4III ACNGT 3 cut(s) 338, 482, 1402
HpyCH4IV ACGT 1 cut(s) 42
HpyCH4V TGCA 6 cut(s) 270, 713, 767, 1091, 1170, 1320
HpyF10VI GCNNNNNNNGC 6 cut(s) 171, 512, 604, 1097, 1180, 1488
HpyF3I CTNAG 6 cut(s) 8, 170, 212, 286, 1136, 1517
HpySE526I ACGT 1 cut(s) 42
Hsp92II CATG 8 cut(s) 560, 602, 611, 1174, 1306, 1313, 1350, 1429
Ksp22I TGATCA 2 cut(s) 565, 1212
Kzo9I GATC 8 cut(s) 11, 559, 565, 1050, 1177, 1212, 1218, 1541
LmnI GCTCC 2 cut(s) 202, 1474
Lsp1109I GCAGC 1 cut(s) 254
LweI GCATC 2 cut(s) 493, 853
MabI ACCWGGT 1 cut(s) 144
MaeI CTAG 4 cut(s) 549, 1149, 1337, 1464
MaeII ACGT 1 cut(s) 42
MaeIII GTNAC 3 cut(s) 3, 16, 1082
MalI GATC 8 cut(s) 13, 561, 567, 1052, 1179, 1214, 1220, 1543
MboI GATC 8 cut(s) 11, 559, 565, 1050, 1177, 1212, 1218, 1541
MboII GAAGA 8 cut(s) 40, 50, 93, 958, 1034, 1236, 1276, 1386
MfeI CAATTG 1 cut(s) 982
MflI RGATCY 1 cut(s) 11
MluCI AATT 6 cut(s) 134, 318, 452, 490, 982, 1449
MmeI TCCRAC 1 cut(s) 88
MroXI GAANNNNTTC 1 cut(s) 255
MseI TTAA 4 cut(s) 24, 519, 1065, 1125
MslI CAYNNNNRTG 2 cut(s) 339, 674
MspI CCGG 4 cut(s) 323, 832, 1070, 1420
MspR9I CCNGG 4 cut(s) 146, 324, 614, 833
MunI CAATTG 1 cut(s) 982
Mva1269I GAATGC 1 cut(s) 165
MvaI CCWGG 2 cut(s) 146, 614
MwoI GCNNNNNNNGC 6 cut(s) 171, 512, 604, 1097, 1180, 1488
NciI CCSGG 2 cut(s) 324, 833
NdeII GATC 8 cut(s) 11, 559, 565, 1050, 1177, 1212, 1218, 1541
NlaIII CATG 8 cut(s) 560, 602, 611, 1174, 1306, 1313, 1350, 1429
NmuCI GTSAC 2 cut(s) 3, 16
NspI RCATGY 4 cut(s) 602, 611, 1174, 1350
PaeI GCATGC 2 cut(s) 611, 1174
PagI TCATGA 1 cut(s) 1302
PctI GAATGC 1 cut(s) 165
PdmI GAANNNNTTC 1 cut(s) 255
PfeI GAWTC 6 cut(s) 297, 425, 508, 540, 701, 1306
PflMI CCANNNNNTGG 3 cut(s) 199, 866, 1039
PfoI TCCNGGA 1 cut(s) 831
PkrI GCNGC 1 cut(s) 269
PsiI TTATAA 1 cut(s) 822
Psp6I CCWGG 2 cut(s) 144, 612
PspGI CCWGG 2 cut(s) 144, 612
PspPI GGNCC 1 cut(s) 222
PstNI CAGNNNCTG 2 cut(s) 259, 866
PsuI RGATCY 1 cut(s) 11
RsaI GTAC 4 cut(s) 871, 1031, 1200, 1556
RsaNI GTAC 4 cut(s) 870, 1030, 1199, 1555
RseI CAYNNNNRTG 2 cut(s) 339, 674
SaqAI TTAA 4 cut(s) 24, 519, 1065, 1125
SatI GCNGC 1 cut(s) 268
Sau3AI GATC 8 cut(s) 11, 559, 565, 1050, 1177, 1212, 1218, 1541
Sau96I GGNCC 1 cut(s) 222
ScrFI CCNGG 4 cut(s) 146, 324, 614, 833
SexAI ACCWGGT 1 cut(s) 144
SfaNI GCATC 2 cut(s) 493, 853
SfcI CTRYAG 1 cut(s) 1398
SinI GGWCC 1 cut(s) 222
SmiMI CAYNNNNRTG 2 cut(s) 339, 674
SphI GCATGC 2 cut(s) 611, 1174
Sse9I AATT 6 cut(s) 134, 318, 452, 490, 982, 1449
SspMI CTAG 4 cut(s) 549, 1149, 1337, 1464
StyD4I CCNGG 4 cut(s) 144, 322, 612, 831
TaaI ACNGT 3 cut(s) 338, 482, 1402
TaiI ACGT 1 cut(s) 45
TaqI TCGA 5 cut(s) 511, 726, 878, 1053, 1544
TasI AATT 6 cut(s) 134, 318, 452, 490, 982, 1449
TatI WGTACW 1 cut(s) 1554
TfiI GAWTC 6 cut(s) 297, 425, 508, 540, 701, 1306
Tru1I TTAA 4 cut(s) 24, 519, 1065, 1125
Tru9I TTAA 4 cut(s) 24, 519, 1065, 1125
TscAI CASTG 3 cut(s) 343, 1407, 1564
TseFI GTSAC 2 cut(s) 3, 16
TseI GCWGC 1 cut(s) 267
Tsp45I GTSAC 2 cut(s) 3, 16
TspRI CASTG 3 cut(s) 343, 1407, 1564
Van91I CCANNNNNTGG 3 cut(s) 199, 866, 1039
VpaK11BI GGWCC 1 cut(s) 222
XbaI TCTAGA 1 cut(s) 1148
XceI RCATGY 4 cut(s) 602, 611, 1174, 1350
XcmI CCANNNNNNNNNTGG 1 cut(s) 456
XmiI GTMKAC 1 cut(s) 1381
XmnI GAANNNNTTC 1 cut(s) 255
XspI CTAG 4 cut(s) 549, 1149, 1337, 1464
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.