Rroxscaffold_3G00235660

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0009286
Physical Location & Seq
Reverse (-)
22728005 .. 22733287
5283 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00235660.1

Sequence Viewer

Length: 1509 bp
ATGATCTTTCATGTTCACAAATGCTTTAAAAGGGTCCGCTTCCTACCCACTACTTCAAACTCTTCTGCCTTTTCCCATACCTCCTTTGAGAGTTGCTCATCTGCTGTGTCTCCACTGGGGTCGTCGCAGCAATTGGAAGACCCTACAAGACTATCGGACCTTGACATTATCATATCTAGAGTTCCTGTTGGAAGTACTGATGATCAAGTACTATTGTCTCTTTCACATGATCAAGCATGTAATAGCATTCAGCTCACACATCTCCTTGTTCATCAATTGTTCCATCGATTTAAGAATGATTGGAAGTCGGCACTGGGTGTGTTTAGATGGGCCGAGTCACGGCCTGGCTATAAACTCCCCCCAGATGCGTATGATATGATCATCGACATTTTAGGTAAAATGAGGCAGATGGATCAGACTATGCATTTGTTAGAAAGAATGCATCAGGATCGTCTGGTAACACTCAACACTGTAGGTAAGGTTATGAGAAGATTCGCTGGCGCGGGGAAATGGGAGGATGCTGTGAGGATATTTGATGGGTTAGGAAGATTTGGATTAGAGAAGAACACAGAATCAATGAACTTGTTGCTTGACACACTCTGCAAAGAGAACAAAGTTGAGGTCGCCCGCAATATCTTTTTAGAACTAAAATCACACATCTCACCAAATGCTCATACGTTTAACATTTTCATTCACGGCTGGTGCAAGGTCAATCGGGTTGATGAGGCACACTGGACAATCCAAGAAATGAAGGGTCATGGCTGTCACCCTTGTGCCATTAGCTACTCAACCATTATCCTCTTTTATTGCCACAAGTACAACTTTGGTAAGGTCTATGAACTGTTTGATGAAATGGAAGCTCAAGGCTGCCCTCCAAATGTTGTCACTTTCACCACTGTTATGTGTTATCTTGCAAAGTCTGAGGAATTCGAGGAAGCTATGCAATTATATGAGAGAATGAAATCAGCTGGATGTAAACCTGATACCCTGTTCTACAACTCACTGATCCACACACTAGGAAGAGCTGGACGAGTACGTGAAGCTATTCATGTTTTTGAGGTTGAGATGCCTGAGAATGAGGTTCCTCATAATACATCAACTTACAATACGATGATTGCCATGTTTTGCAATAATGCTCAGGAGGAGGAAGCCTTGAAAATCCTCCGGAAGATGGAAAGTTCAGGGCTCTGTAAGCCTGATGTTCAGACATACTATCCGTTGCTTAAAATGTGCTTCAAAACTGGCAAAACAGACAATTGTTTGAATGAGTTAGTGAATGACATGGTCAATGGACATCATCTCAGTCTTGATCTCTCAACATATACACTTCTAATTCACGGTCTATGCAGAGCAGGTAAATGTGAGTGGGCTTACAGTCTGTTCAAAGAGATGATTGCTCAAGAGATGAAGCCTAGATATAAGACATGTCGTTTGCTTTGGGATGAAGTCAAACTGAAGAATATGTCTGCAGCTGCTGACAGCATTGCAGATTTCATGAAGAAGCTATAA

Protein Analysis

502

Amino Acids

57.58

Weight (kDa)

6.88

Isoelectric Point (pI)

36.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 189 - 236 9.4e-10 PPR repeat family
PPR_1 PF12854 220 - 244 1.7e-07 PPR repeat
PPR_2 PF13041 222 - 266 4.2e-09 PPR repeat family
PPR_2 PF13041 257 - 301 1.2e-10 PPR repeat family
PPR_long PF17177 275 - 352 9.3e-07 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 281 - 340 2.3e-10 Pentatricopeptide repeat domain
PPR_1 PF12854 289 - 321 9.4e-06 PPR repeat
PPR_2 PF13041 292 - 329 7.6e-11 PPR repeat family
PPR_long PF17177 305 - 476 3.1e-13 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 324 - 353 6.7e-08 PPR repeat
PPR_2 PF13041 327 - 377 5.9e-10 PPR repeat family
TPR_24 PF23276 335 - 464 1e-06 Fungal tetratrico peptide repeats
PPR_3 PF13812 355 - 411 5.1e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 364 - 413 3.2e-10 PPR repeat family
PPR PF01535 366 - 396 2.7e-06 PPR repeat
PPR_1 PF12854 434 - 464 1.7e-09 PPR repeat
PPR_2 PF13041 437 - 471 9.8e-06 PPR repeat family
PPR PF01535 439 - 465 1.3e-07 PPR repeat
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) 1343
AccII CGCG 1 cut(s) 503
AccIII TCCGGA 1 cut(s) 1164
AciI CCGC 3 cut(s) 37, 503, 628
AclWI GGATC 3 cut(s) 420, 456, 1000
AcsI RAATTY 1 cut(s) 926
AcuI CTGAAG 1 cut(s) 1475
AdeI CACNNNGTG 1 cut(s) 317
AfaI GTAC 4 cut(s) 196, 210, 818, 1035
AfiI CCNNNNNNNGG 2 cut(s) 339, 1171
AflIII ACRYGT 1 cut(s) 1424
AgsI TTSAA 5 cut(s) 57, 1156, 1237, 1264, 1384
AjnI CCWGG 1 cut(s) 343
AleI CACNNNNGTG 1 cut(s) 771
AluBI AGCT 9 cut(s) 253, 783, 860, 938, 968, 1025, 1043, 1472, 1504
AluI AGCT 9 cut(s) 253, 783, 860, 938, 968, 1025, 1043, 1472, 1504
Alw26I GTCTC 2 cut(s) 114, 222
AlwI GGATC 3 cut(s) 420, 456, 1000
AlwNI CAGNNNCTG 1 cut(s) 1475
Aor13HI TCCGGA 1 cut(s) 1164
AoxI GGCC 2 cut(s) 330, 341
ApeKI GCWGC 4 cut(s) 127, 867, 1469, 1472
ApoI RAATTY 1 cut(s) 926
ArsI GACNNNNNNTTYG 6 cut(s) 409, 441, 606, 638, 1414, 1446
Asp700I GAANNNNTTC 1 cut(s) 1044
AspLEI GCGC 1 cut(s) 503
AspS9I GGNCC 3 cut(s) 34, 157, 330
AsuHPI GGTGA 3 cut(s) 654, 758, 883
AvaII GGWCC 2 cut(s) 34, 157
BanII GRGCYC 1 cut(s) 1188
BbsI GAAGAC 1 cut(s) 144
BbvI GCAGC 4 cut(s) 139, 854, 1459, 1481
BccI CCATC 5 cut(s) 291, 321, 403, 530, 1165
BceAI ACGGC 2 cut(s) 356, 712
BcgI CGANNNNNNTGC 2 cut(s) 431, 465
BciT130I CCWGG 1 cut(s) 345
BclI TGATCA 3 cut(s) 202, 229, 378
BcoDI GTCTC 2 cut(s) 114, 222
BfaI CTAG 3 cut(s) 177, 1016, 1413
BfmI CTRYAG 2 cut(s) 471, 1467
BfuAI ACCTGC 1 cut(s) 1343
BisI GCNGC 4 cut(s) 128, 868, 1470, 1473
BlsI GCNGC 4 cut(s) 129, 869, 1471, 1474
BmcAI AGTACT 2 cut(s) 196, 210
Bme1390I CCNGG 1 cut(s) 345
Bme18I GGWCC 2 cut(s) 34, 157
BmgT120I GGNCC 3 cut(s) 34, 157, 330
BmiI GGNNCC 2 cut(s) 35, 1083
BmrFI CCNGG 1 cut(s) 345
BmrI ACTGGG 2 cut(s) 125, 323
BmsI GCATC 4 cut(s) 355, 451, 508, 1056
BmuI ACTGGG 2 cut(s) 125, 323
BpiI GAAGAC 1 cut(s) 144
BplI GAGNNNNNCTC 2 cut(s) 80, 112
Bpu10I CCTNAGC 1 cut(s) 1137
BpuEI CTTGAG 2 cut(s) 846, 1383
Bsa29I ATCGAT 1 cut(s) 286
BsaAI YACGTR 1 cut(s) 1037
BsaWI WCCGGW 1 cut(s) 1164
Bsc4I CCNNNNNNNGG 2 cut(s) 339, 1171
Bse1I ACTGG 4 cut(s) 120, 318, 737, 1246
Bse3DI GCAATG 1 cut(s) 1482
BseAI TCCGGA 1 cut(s) 1164
BseBI CCWGG 1 cut(s) 345
BseCI ATCGAT 1 cut(s) 286
BseGI GGATG 3 cut(s) 523, 977, 1447
BseLI CCNNNNNNNGG 2 cut(s) 339, 1171
BseMI GCAATG 1 cut(s) 1482
BseMII CTCAG 4 cut(s) 912, 1062, 1151, 1315
BseNI ACTGG 4 cut(s) 120, 318, 737, 1246
BseRI GAGGAG 1 cut(s) 1157
BseXI GCAGC 4 cut(s) 139, 854, 1459, 1481
Bsh1236I CGCG 1 cut(s) 503
BshFI GGCC 2 cut(s) 332, 343
BshVI ATCGAT 1 cut(s) 286
BsiSI CCGG 1 cut(s) 1165
BslI CCNNNNNNNGG 2 cut(s) 339, 1171
BsmAI GTCTC 2 cut(s) 114, 222
BsmI GAATGC 2 cut(s) 246, 444
BsnI GGCC 2 cut(s) 332, 343
Bsp1286I GDGCHC 1 cut(s) 1188
Bsp13I TCCGGA 1 cut(s) 1164
Bsp143I GATC 8 cut(s) 3, 202, 229, 378, 412, 448, 1005, 1309
BspACI CCGC 3 cut(s) 37, 503, 628
BspANI GGCC 2 cut(s) 332, 343
BspCNI CTCAG 4 cut(s) 913, 1063, 1150, 1314
BspDI ATCGAT 1 cut(s) 286
BspEI TCCGGA 1 cut(s) 1164
BspFNI CGCG 1 cut(s) 503
BspHI TCATGA 1 cut(s) 1494
BspLI GGNNCC 2 cut(s) 35, 1083
BspMAI CTGCAG 1 cut(s) 1471
BspMI ACCTGC 1 cut(s) 1343
BspPI GGATC 3 cut(s) 420, 456, 1000
BspQI GCTCTTC 1 cut(s) 1015
BsrDI GCAATG 1 cut(s) 1482
BsrI ACTGG 4 cut(s) 120, 318, 737, 1246
BssMI GATC 8 cut(s) 3, 202, 229, 378, 412, 448, 1005, 1309
Bst2UI CCWGG 1 cut(s) 345
Bst4CI ACNGT 5 cut(s) 472, 843, 898, 1340, 1376
Bst6I CTCTTC 2 cut(s) 67, 1015
BstBAI YACGTR 1 cut(s) 1037
BstC8I GCNNGC 2 cut(s) 499, 628
BstDEI CTNAG 4 cut(s) 921, 1071, 1137, 1301
BstF5I GGATG 3 cut(s) 523, 977, 1447
BstFNI CGCG 1 cut(s) 503
BstHHI GCGC 1 cut(s) 503
BstKTI GATC 8 cut(s) 6, 205, 232, 381, 415, 451, 1008, 1312
BstMAI GTCTC 2 cut(s) 114, 222
BstMBI GATC 8 cut(s) 3, 202, 229, 378, 412, 448, 1005, 1309
BstMWI GCNNNNNNNGC 1 cut(s) 1192
BstNI CCWGG 1 cut(s) 345
BstNSI RCATGY 2 cut(s) 240, 1428
BstSCI CCNGG 1 cut(s) 343
BstSFI CTRYAG 2 cut(s) 471, 1467
BstUI CGCG 1 cut(s) 503
BstV1I GCAGC 4 cut(s) 139, 854, 1459, 1481
BstV2I GAAGAC 1 cut(s) 144
Bsu15I ATCGAT 1 cut(s) 286
BsuRI GGCC 2 cut(s) 332, 343
BsuTUI ATCGAT 1 cut(s) 286
BtsCI GGATG 3 cut(s) 523, 977, 1447
BtsIMutI CAGTG 6 cut(s) 113, 311, 468, 730, 894, 1001
BveI ACCTGC 1 cut(s) 1343
Cac8I GCNNGC 2 cut(s) 499, 628
CaiI CAGNNNCTG 1 cut(s) 1475
CciI TCATGA 1 cut(s) 1494
CfoI GCGC 1 cut(s) 503
Cfr13I GGNCC 3 cut(s) 34, 157, 330
ClaI ATCGAT 1 cut(s) 286
Csp6I GTAC 4 cut(s) 195, 209, 817, 1034
CviAII CATG 9 cut(s) 11, 227, 237, 758, 1049, 1120, 1282, 1425, 1495
CviQI GTAC 4 cut(s) 195, 209, 817, 1034
DdeI CTNAG 4 cut(s) 921, 1071, 1137, 1301
DpnI GATC 8 cut(s) 5, 204, 231, 380, 414, 450, 1007, 1311
DpnII GATC 8 cut(s) 3, 202, 229, 378, 412, 448, 1005, 1309
DraI TTTAAA 1 cut(s) 28
DraIII CACNNNGTG 1 cut(s) 317
Eam1104I CTCTTC 2 cut(s) 67, 1015
EarI CTCTTC 2 cut(s) 67, 1015
Eco24I GRGCYC 1 cut(s) 1188
Eco47I GGWCC 2 cut(s) 34, 157
Eco57I CTGAAG 1 cut(s) 1475
EcoRI GAATTC 1 cut(s) 926
EcoRII CCWGG 1 cut(s) 343
EcoT22I ATGCAT 2 cut(s) 426, 444
EcoT38I GRGCYC 1 cut(s) 1188
FaeI CATG 9 cut(s) 14, 230, 240, 761, 1052, 1123, 1285, 1428, 1498
FalI AAGNNNNNCTT 2 cut(s) 806, 838
FatI CATG 9 cut(s) 10, 226, 236, 757, 1048, 1119, 1281, 1424, 1494
FauI CCCGC 2 cut(s) 496, 635
FbaI TGATCA 3 cut(s) 202, 229, 378
Fnu4HI GCNGC 4 cut(s) 128, 868, 1470, 1473
FokI GGATG 3 cut(s) 530, 984, 1454
FriOI GRGCYC 1 cut(s) 1188
Fsp4HI GCNGC 4 cut(s) 128, 868, 1470, 1473
FspBI CTAG 3 cut(s) 177, 1016, 1413
GlaI GCGC 1 cut(s) 502
GluI GCNGC 4 cut(s) 128, 868, 1470, 1473
HaeIII GGCC 2 cut(s) 332, 343
HapII CCGG 1 cut(s) 1165
HhaI GCGC 1 cut(s) 503
Hin1II CATG 9 cut(s) 14, 230, 240, 761, 1052, 1123, 1285, 1428, 1498
Hin6I GCGC 1 cut(s) 501
HinP1I GCGC 1 cut(s) 501
HinfI GANTC 3 cut(s) 335, 492, 572
HpaII CCGG 1 cut(s) 1165
HphI GGTGA 3 cut(s) 654, 758, 883
Hpy166II GTNNAC 2 cut(s) 16, 977
Hpy188I TCNGA 4 cut(s) 157, 417, 922, 1206
Hpy188III TCNNGA 7 cut(s) 177, 446, 1139, 1165, 1307, 1400, 1495
Hpy8I GTNNAC 2 cut(s) 16, 977
Hpy99I CGWCG 1 cut(s) 127
HpyAV CCTTC 1 cut(s) 745
HpyCH4III ACNGT 5 cut(s) 472, 843, 898, 1340, 1376
HpyCH4IV ACGT 2 cut(s) 677, 1036
HpyF10VI GCNNNNNNNGC 1 cut(s) 1192
HpyF3I CTNAG 4 cut(s) 921, 1071, 1137, 1301
HpySE526I ACGT 2 cut(s) 677, 1036
Hsp92II CATG 9 cut(s) 14, 230, 240, 761, 1052, 1123, 1285, 1428, 1498
HspAI GCGC 1 cut(s) 501
Kpn2I TCCGGA 1 cut(s) 1164
Ksp22I TGATCA 3 cut(s) 202, 229, 378
Kzo9I GATC 8 cut(s) 3, 202, 229, 378, 412, 448, 1005, 1309
LguI GCTCTTC 1 cut(s) 1015
Lsp1109I GCAGC 4 cut(s) 139, 854, 1459, 1481
LweI GCATC 4 cut(s) 355, 451, 508, 1056
MaeI CTAG 3 cut(s) 177, 1016, 1413
MaeII ACGT 2 cut(s) 677, 1036
MaeIII GTNAC 4 cut(s) 336, 457, 764, 883
MalI GATC 8 cut(s) 5, 204, 231, 380, 414, 450, 1007, 1311
MboI GATC 8 cut(s) 3, 202, 229, 378, 412, 448, 1005, 1309
MboII GAAGA 8 cut(s) 54, 149, 501, 558, 574, 1032, 1180, 1468
MfeI CAATTG 3 cut(s) 131, 275, 1255
MhlI GDGCHC 1 cut(s) 1188
MluCI AATT 6 cut(s) 131, 275, 926, 944, 1255, 1332
MlyI GAGTC 1 cut(s) 344
MmeI TCCRAC 1 cut(s) 169
Mph1103I ATGCAT 2 cut(s) 426, 444
MroI TCCGGA 1 cut(s) 1164
MroXI GAANNNNTTC 1 cut(s) 1044
MseI TTAA 4 cut(s) 27, 291, 681, 1224
MslI CAYNNNNRTG 2 cut(s) 771, 899
MspA1I CMGCKG 2 cut(s) 968, 1472
MspI CCGG 1 cut(s) 1165
MspR9I CCNGG 1 cut(s) 345
MunI CAATTG 3 cut(s) 131, 275, 1255
Mva1269I GAATGC 2 cut(s) 246, 444
MvaI CCWGG 1 cut(s) 345
MvnI CGCG 1 cut(s) 503
MwoI GCNNNNNNNGC 1 cut(s) 1192
NdeII GATC 8 cut(s) 3, 202, 229, 378, 412, 448, 1005, 1309
NlaIII CATG 9 cut(s) 14, 230, 240, 761, 1052, 1123, 1285, 1428, 1498
NlaIV GGNNCC 2 cut(s) 35, 1083
NmeAIII GCCGAG 1 cut(s) 358
NmuCI GTSAC 3 cut(s) 336, 764, 883
NsiI ATGCAT 2 cut(s) 426, 444
NspI RCATGY 2 cut(s) 240, 1428
OliI CACNNNNGTG 1 cut(s) 771
PagI TCATGA 1 cut(s) 1494
PciI ACATGT 1 cut(s) 1424
PciSI GCTCTTC 1 cut(s) 1015
PctI GAATGC 2 cut(s) 246, 444
PdmI GAANNNNTTC 1 cut(s) 1044
PfeI GAWTC 2 cut(s) 492, 572
PflFI GACNNNGTC 1 cut(s) 1283
PkrI GCNGC 4 cut(s) 129, 869, 1471, 1474
PleI GAGTC 1 cut(s) 343
PpsI GAGTC 1 cut(s) 343
Ppu21I YACGTR 1 cut(s) 1037
PscI ACATGT 1 cut(s) 1424
Psp6I CCWGG 1 cut(s) 343
PspGI CCWGG 1 cut(s) 343
PspN4I GGNNCC 2 cut(s) 35, 1083
PspPI GGNCC 3 cut(s) 34, 157, 330
PstI CTGCAG 1 cut(s) 1471
PstNI CAGNNNCTG 1 cut(s) 1475
PsyI GACNNNGTC 1 cut(s) 1283
PvuII CAGCTG 2 cut(s) 968, 1472
RsaI GTAC 4 cut(s) 196, 210, 818, 1035
RsaNI GTAC 4 cut(s) 195, 209, 817, 1034
RseI CAYNNNNRTG 2 cut(s) 771, 899
SapI GCTCTTC 1 cut(s) 1015
SaqAI TTAA 4 cut(s) 27, 291, 681, 1224
SatI GCNGC 4 cut(s) 128, 868, 1470, 1473
Sau3AI GATC 8 cut(s) 3, 202, 229, 378, 412, 448, 1005, 1309
Sau96I GGNCC 3 cut(s) 34, 157, 330
ScaI AGTACT 2 cut(s) 196, 210
SchI GAGTC 1 cut(s) 344
ScrFI CCNGG 1 cut(s) 345
SduI GDGCHC 1 cut(s) 1188
SfaNI GCATC 4 cut(s) 355, 451, 508, 1056
SfcI CTRYAG 2 cut(s) 471, 1467
SinI GGWCC 2 cut(s) 34, 157
SmiMI CAYNNNNRTG 2 cut(s) 771, 899
SmlI CTYRAG 2 cut(s) 861, 1398
SmoI CTYRAG 2 cut(s) 861, 1398
Sse9I AATT 6 cut(s) 131, 275, 926, 944, 1255, 1332
SsiI CCGC 3 cut(s) 37, 503, 628
SspMI CTAG 3 cut(s) 177, 1016, 1413
StyD4I CCNGG 1 cut(s) 343
TaaI ACNGT 5 cut(s) 472, 843, 898, 1340, 1376
TaiI ACGT 2 cut(s) 680, 1039
TaqI TCGA 3 cut(s) 286, 384, 930
TasI AATT 6 cut(s) 131, 275, 926, 944, 1255, 1332
TatI WGTACW 3 cut(s) 194, 208, 816
TfiI GAWTC 2 cut(s) 492, 572
Tru1I TTAA 4 cut(s) 27, 291, 681, 1224
Tru9I TTAA 4 cut(s) 27, 291, 681, 1224
TscAI CASTG 6 cut(s) 120, 318, 475, 737, 901, 1008
TseFI GTSAC 3 cut(s) 336, 764, 883
TseI GCWGC 4 cut(s) 127, 867, 1469, 1472
Tsp45I GTSAC 3 cut(s) 336, 764, 883
TspGWI ACGGA 1 cut(s) 1206
TspRI CASTG 6 cut(s) 120, 318, 475, 737, 901, 1008
Tth111I GACNNNGTC 1 cut(s) 1283
VpaK11BI GGWCC 2 cut(s) 34, 157
XapI RAATTY 1 cut(s) 926
XbaI TCTAGA 1 cut(s) 176
XceI RCATGY 2 cut(s) 240, 1428
XmnI GAANNNNTTC 1 cut(s) 1044
XspI CTAG 3 cut(s) 177, 1016, 1413
ZrmI AGTACT 2 cut(s) 196, 210
Zsp2I ATGCAT 2 cut(s) 426, 444
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.