Rw3G006730

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0008008
Physical Location & Seq
Forward (+)
6270335 .. 6272132
1798 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G006730.1

Sequence Viewer

Length: 1719 bp
ATGCATCCCAGACTTCAAATTCTCCACAGAAGCAAACAGATTGTGAGGACTCTCTGCTCTTTAACTTGCATACCCAGAAATCCCACATCGGAAAAATTGAATCTTCCACTGGTTTCAGAGCTATTAGCAAAGCAGAGCTCGGACTTTACCTCAGTTTTTCATCAGGTTTTGGATTCTGGAGCAGACCCAGTACTGATACTCAGGTACTTACATTGTTGCCAGAAGGATTTCAATGCTGCACATAATCTGGAACTCACTTTCAGACTCTTGGGTTCATTAGCAATAGCCAAAAGGTACTCAAAGATTAGAGCTTTTTTACATGGGTTCGTTAGAAGCAATGAAAAGCTATCAAATTCTGCAATTTTTAACTCGCTTTCGTTGGGTAGTAAACATTTGGCTGCAAATTCCATTATTGTTAACTTGTTGGTGTTGGCATATGTGAAAAATTTGAAGACCCATTTGGGTGTTCAAGCATTTCAGAAAGCTGGTGATTGTGGGTTCAAGTTGGTGGTGTTTTCTTGTAACCCTTTGTTAAGGGCTTTGGTGAAGGAAGGTGAAATTGGGAATGTTGAATTTGTTTACAGGGAGATGATTAGGAGGAGAATTAGGCCCAATTTGTACACGTTTAATATGGTGATTAGGGGATTGTGTAAAGTTGGGAAATTGGAGGAGGCAAAGGATGTTATTATTAATGACATGAAGGCTTGGGGGATATCACCAAATGTGGTTAGTTATAATACTTTGATCGATGGGTATTGCAAGTTGGGTGGGTTGGGGAAGATGTACAAAGCTGATGCGATTGTGAAGGAAATGATGGCAAATAGTGTTCGGCCAAATAAGTGTACTTACAATATTTTGATTAGTGGCTTTGGTAAAGATGAGAATGTACCGGCTGCGGTCAAAGTTTTTGAGGAGATAACGAAGCAGGATTTGAAACCAGATGAGTTTACATGTTGTTCACTGATTAATGGGTTGTGCCGCATTGGTGAGCTTGACAAGGCTTGCGATTTACTGGGGGAAATGCGTGGCTTGGGTTTGAAGCCAAATGTTATTACGTACAATGCACTTATTAATGGGTTTTGTAAGAGGAAGATGATGAAGAGAGCTAGAGAGTTATTCGATGACATTGGCAGACAAGGCTTGGAGCCGAGTGTTATTACGTACAATACACTAATTGATGCTTACTCCAAGGATGGGATGATGGAGGAAGCATATGAGGTGTATAATTCAATGTTAGAGAGAGGAGTTTCCCCAAACACTTCGACCTTCAACTGCCGGATTGCTGGTTTGTGCAGACAGGGAAACATGGAGATGGCCATGAAGCTTTTACATGAAATGGAGGTTGATGGCTTGAGAGCTGATCGCATAACATATAACACGTTAATAGATGGATTGTGCAAAGAAGGGAAGTCAAGAAAGGCAGGAACTCTCTTGGATGAGATGTTCAAGAAGCGTTTGAGAAACCTCAGTGCAGCTTTGAATCTGAGGGCACTGATGGAGAAAGGAGGGAAGCTACCAAATACTGCAACATATAATGCGTTGATCAAGGGATATTCTAAGAAGGACAAGCTTGAAGATGCAAATGGGCTTCTTAATGAAATGTTGGAGAAGGGGTTGGTCCCAAACCAAACTACTTACGAAATAGTGAAAGAGGAAATGATGAAGAAAGGTTTTGTTCCTGATATAGATTGGCACCTGTATAATATCTCTAGCTCTTAG

Protein Analysis

572

Amino Acids

64.24

Weight (kDa)

9.14

Isoelectric Point (pI)

29.63

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 159 - 214 7.1e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 171 - 218 9.4e-11 PPR repeat family
PPR_1 PF12854 202 - 228 1.3e-07 PPR repeat
PPR_2 PF13041 208 - 254 3.2e-15 PPR repeat family
PPR_3 PF13812 229 - 292 4.7e-11 Pentatricopeptide repeat domain
PPR_1 PF12854 236 - 256 2.8e-08 PPR repeat
PPR_2 PF13041 259 - 292 6.3e-06 PPR repeat family
PPR_long PF17177 268 - 407 3e-07 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 276 - 306 3e-07 PPR repeat
PPR_2 PF13041 278 - 327 1.1e-13 PPR repeat family
PPR_3 PF13812 301 - 362 3.9e-11 Pentatricopeptide repeat domain
PPR_1 PF12854 310 - 342 4.9e-09 PPR repeat
PPR PF01535 316 - 346 3.5e-06 PPR repeat
PPR_2 PF13041 320 - 362 6.6e-14 PPR repeat family
PPR_1 PF12854 345 - 375 8.7e-12 PPR repeat
PPR_2 PF13041 348 - 394 4.4e-16 PPR repeat family
PPR PF01535 351 - 380 8.6e-07 PPR repeat
PPR_long PF17177 364 - 478 9.5e-07 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 372 - 425 5.1e-11 Pentatricopeptide repeat domain
PPR_1 PF12854 380 - 411 1.9e-10 PPR repeat
PPR_2 PF13041 383 - 425 1.1e-15 PPR repeat family
PPR PF01535 386 - 416 1.4e-10 PPR repeat
PPR_1 PF12854 414 - 447 4.3e-09 PPR repeat
PPR_2 PF13041 418 - 467 2.1e-16 PPR repeat family
PPR PF01535 421 - 451 1.6e-06 PPR repeat
PPR_1 PF12854 450 - 481 1.8e-10 PPR repeat
PPR_2 PF13041 454 - 485 1.2e-07 PPR repeat family
PPR PF01535 456 - 485 2.3e-07 PPR repeat
PPR_1 PF12854 505 - 534 8.4e-07 PPR repeat
PPR_2 PF13041 506 - 548 1.2e-13 PPR repeat family
PPR PF01535 510 - 539 4.8e-08 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)
AanI TTATAA 1 cut(s) 735
AccB1I GGYRCC 1 cut(s) 1692
AciI CCGC 2 cut(s) 896, 979
AcoI YGGCCR 2 cut(s) 830, 1314
AcsI RAATTY 5 cut(s) 18, 352, 403, 445, 572
AfaI GTAC 9 cut(s) 192, 206, 296, 620, 785, 844, 888, 1058, 1163
AfiI CCNNNNNNNGG 1 cut(s) 1194
AflIII ACRYGT 3 cut(s) 621, 950, 1377
AjuI GAANNNNNNNTTGG 4 cut(s) 443, 475, 543, 575
AloI GAACNNNNNNTCC 2 cut(s) 1427, 1459
Alw21I GWGCWC 1 cut(s) 140
AoxI GGCC 3 cut(s) 608, 830, 1314
ApeKI GCWGC 4 cut(s) 236, 398, 893, 1472
ApoI RAATTY 5 cut(s) 18, 352, 403, 445, 572
AseI ATTAAT 3 cut(s) 690, 966, 1071
Asp700I GAANNNNTTC 1 cut(s) 227
AspS9I GGNCC 2 cut(s) 609, 1618
AsuHPI GGTGA 6 cut(s) 500, 556, 566, 646, 708, 998
AvaII GGWCC 1 cut(s) 1618
BaeGI GKGCMC 1 cut(s) 1492
BaeI ACNNNNGTAYC 2 cut(s) 188, 221
BalI TGGCCA 1 cut(s) 1316
BanI GGYRCC 1 cut(s) 1692
BanII GRGCYC 1 cut(s) 140
BbsI GAAGAC 1 cut(s) 458
Bbv12I GWGCWC 1 cut(s) 140
BbvI GCAGC 4 cut(s) 223, 385, 880, 1484
BccI CCATC 8 cut(s) 743, 808, 1187, 1195, 1306, 1340, 1382, 1489
BclI TGATCA 1 cut(s) 1542
BfaI CTAG 2 cut(s) 1107, 1710
BisI GCNGC 5 cut(s) 237, 399, 894, 979, 1473
BlsI GCNGC 5 cut(s) 238, 400, 895, 980, 1474
BmcAI AGTACT 1 cut(s) 192
Bme18I GGWCC 1 cut(s) 1618
BmgT120I GGNCC 2 cut(s) 609, 1618
BmiI GGNNCC 3 cut(s) 1146, 1620, 1694
BmrI ACTGGG 2 cut(s) 182, 1022
BmsI GCATC 4 cut(s) 13, 784, 1168, 1567
BmuI ACTGGG 2 cut(s) 182, 1022
BpiI GAAGAC 1 cut(s) 458
BpmI CTGGAG 1 cut(s) 198
BpuEI CTTGAG 1 cut(s) 1372
Bsa29I ATCGAT 1 cut(s) 747
BsaAI YACGTR 2 cut(s) 1056, 1161
BsaJI CCNNGG 1 cut(s) 1188
BsaXI ACNNNNNCTCC 2 cut(s) 1598, 1628
Bsc4I CCNNNNNNNGG 1 cut(s) 1194
Bse118I RCCGGY 1 cut(s) 889
Bse1I ACTGG 3 cut(s) 114, 188, 1017
Bse3DI GCAATG 1 cut(s) 343
BseCI ATCGAT 1 cut(s) 747
BseDI CCNNGG 1 cut(s) 1188
BseGI GGATG 5 cut(s) 4, 685, 1198, 1203, 1441
BseLI CCNNNNNNNGG 1 cut(s) 1194
BseMI GCAATG 1 cut(s) 343
BseMII CTCAG 4 cut(s) 165, 214, 1475, 1480
BseNI ACTGG 3 cut(s) 114, 188, 1017
BseRI GAGGAG 4 cut(s) 613, 683, 926, 1257
BseSI GKGCMC 1 cut(s) 1492
BseXI GCAGC 4 cut(s) 223, 385, 880, 1484
BsgI GTGCAG 3 cut(s) 222, 1312, 1491
BshFI GGCC 3 cut(s) 610, 832, 1316
BshNI GGYRCC 1 cut(s) 1692
BshVI ATCGAT 1 cut(s) 747
BsiHKAI GWGCWC 1 cut(s) 140
BsiSI CCGG 2 cut(s) 890, 1276
BslFI GGGAC 1 cut(s) 1604
BslI CCNNNNNNNGG 1 cut(s) 1194
BsmFI GGGAC 1 cut(s) 1604
BsnI GGCC 3 cut(s) 610, 832, 1316
Bsp1286I GDGCHC 2 cut(s) 140, 1492
Bsp1407I TGTACA 2 cut(s) 618, 783
Bsp143I GATC 3 cut(s) 744, 1360, 1542
BspACI CCGC 2 cut(s) 896, 979
BspANI GGCC 3 cut(s) 610, 832, 1316
BspCNI CTCAG 4 cut(s) 164, 213, 1476, 1479
BspDI ATCGAT 1 cut(s) 747
BspLI GGNNCC 3 cut(s) 1146, 1620, 1694
BspT107I GGYRCC 1 cut(s) 1692
BsrDI GCAATG 1 cut(s) 343
BsrFI RCCGGY 1 cut(s) 889
BsrGI TGTACA 2 cut(s) 618, 783
BsrI ACTGG 3 cut(s) 114, 188, 1017
BssAI RCCGGY 1 cut(s) 889
BssECI CCNNGG 1 cut(s) 1188
BssMI GATC 3 cut(s) 744, 1360, 1542
BssT1I CCWWGG 1 cut(s) 1188
Bst6I CTCTTC 1 cut(s) 1094
BstAUI TGTACA 2 cut(s) 618, 783
BstBAI YACGTR 2 cut(s) 1056, 1161
BstC8I GCNNGC 1 cut(s) 1003
BstDEI CTNAG 6 cut(s) 151, 200, 1466, 1484, 1557, 1716
BstF5I GGATG 5 cut(s) 4, 685, 1198, 1203, 1441
BstKTI GATC 3 cut(s) 747, 1363, 1545
BstMBI GATC 3 cut(s) 744, 1360, 1542
BstMWI GCNNNNNNNGC 1 cut(s) 1137
BstNSI RCATGY 1 cut(s) 954
BstSLI GKGCMC 1 cut(s) 1492
BstSNI TACGTA 2 cut(s) 1056, 1161
BstV1I GCAGC 4 cut(s) 223, 385, 880, 1484
BstV2I GAAGAC 1 cut(s) 458
Bsu15I ATCGAT 1 cut(s) 747
BsuRI GGCC 3 cut(s) 610, 832, 1316
BsuTUI ATCGAT 1 cut(s) 747
BtsCI GGATG 5 cut(s) 4, 685, 1198, 1203, 1441
BtsIMutI CAGTG 4 cut(s) 107, 959, 1474, 1490
Cac8I GCNNGC 1 cut(s) 1003
Cfr10I RCCGGY 1 cut(s) 889
Cfr13I GGNCC 2 cut(s) 609, 1618
ClaI ATCGAT 1 cut(s) 747
Csp6I GTAC 9 cut(s) 191, 205, 295, 619, 784, 843, 887, 1057, 1162
CspCI CAANNNNNGTGG 2 cut(s) 748, 783
CviAII CATG 6 cut(s) 320, 697, 951, 1306, 1318, 1331
CviQI GTAC 9 cut(s) 191, 205, 295, 619, 784, 843, 887, 1057, 1162
DdeI CTNAG 6 cut(s) 151, 200, 1466, 1484, 1557, 1716
DpnI GATC 3 cut(s) 746, 1362, 1544
DpnII GATC 3 cut(s) 744, 1360, 1542
EaeI YGGCCR 2 cut(s) 830, 1314
Eam1104I CTCTTC 1 cut(s) 1094
EarI CTCTTC 1 cut(s) 1094
Ecl136II GAGCTC 1 cut(s) 138
Eco105I TACGTA 2 cut(s) 1056, 1161
Eco130I CCWWGG 1 cut(s) 1188
Eco24I GRGCYC 1 cut(s) 140
Eco32I GATATC 1 cut(s) 714
Eco47I GGWCC 1 cut(s) 1618
Eco53kI GAGCTC 1 cut(s) 138
EcoICRI GAGCTC 1 cut(s) 138
EcoRV GATATC 1 cut(s) 714
EcoT14I CCWWGG 1 cut(s) 1188
EcoT22I ATGCAT 1 cut(s) 6
EcoT38I GRGCYC 1 cut(s) 140
ErhI CCWWGG 1 cut(s) 1188
FaeI CATG 6 cut(s) 323, 700, 954, 1309, 1321, 1334
FaqI GGGAC 1 cut(s) 1604
FatI CATG 6 cut(s) 319, 696, 950, 1305, 1317, 1330
FauNDI CATATG 2 cut(s) 436, 1213
FbaI TGATCA 1 cut(s) 1542
Fnu4HI GCNGC 5 cut(s) 237, 399, 894, 979, 1473
FokI GGATG 4 cut(s) 692, 1205, 1210, 1448
FriOI GRGCYC 1 cut(s) 140
Fsp4HI GCNGC 5 cut(s) 237, 399, 894, 979, 1473
FspBI CTAG 2 cut(s) 1107, 1710
GluI GCNGC 5 cut(s) 237, 399, 894, 979, 1473
GsuI CTGGAG 1 cut(s) 198
HaeIII GGCC 3 cut(s) 610, 832, 1316
HapII CCGG 2 cut(s) 890, 1276
Hin1II CATG 6 cut(s) 323, 700, 954, 1309, 1321, 1334
HincII GTYRAC 1 cut(s) 418
HindII GTYRAC 1 cut(s) 418
HindIII AAGCTT 2 cut(s) 1322, 1568
HinfI GANTC 5 cut(s) 49, 100, 173, 264, 1480
HpaI GTTAAC 1 cut(s) 418
HpaII CCGG 2 cut(s) 890, 1276
HphI GGTGA 6 cut(s) 500, 556, 566, 646, 708, 998
Hpy166II GTNNAC 7 cut(s) 389, 418, 580, 621, 843, 948, 959
Hpy188I TCNGA 6 cut(s) 91, 118, 142, 263, 480, 1485
Hpy188III TCNNGA 5 cut(s) 177, 248, 1413, 1447, 1679
Hpy8I GTNNAC 7 cut(s) 389, 418, 580, 621, 843, 948, 959
HpyAV CCTTC 9 cut(s) 217, 541, 545, 694, 799, 1276, 1397, 1555, 1603
HpyCH4IV ACGT 4 cut(s) 623, 1055, 1160, 1379
HpyF10VI GCNNNNNNNGC 1 cut(s) 1137
HpyF3I CTNAG 6 cut(s) 151, 200, 1466, 1484, 1557, 1716
HpySE526I ACGT 4 cut(s) 623, 1055, 1160, 1379
Hsp92II CATG 6 cut(s) 323, 700, 954, 1309, 1321, 1334
Ksp22I TGATCA 1 cut(s) 1542
KspAI GTTAAC 1 cut(s) 418
Kzo9I GATC 3 cut(s) 744, 1360, 1542
LmnI GCTCC 2 cut(s) 179, 1144
Lsp1109I GCAGC 4 cut(s) 223, 385, 880, 1484
LweI GCATC 4 cut(s) 13, 784, 1168, 1567
MaeI CTAG 2 cut(s) 1107, 1710
MaeII ACGT 4 cut(s) 623, 1055, 1160, 1379
MaeIII GTNAC 1 cut(s) 521
MalI GATC 3 cut(s) 746, 1362, 1544
MboI GATC 3 cut(s) 744, 1360, 1542
MboII GAAGA 7 cut(s) 95, 463, 790, 1102, 1111, 1586, 1675
MhlI GDGCHC 2 cut(s) 140, 1492
MlsI TGGCCA 1 cut(s) 1316
MluNI TGGCCA 1 cut(s) 1316
MlyI GAGTC 2 cut(s) 43, 258
MmeI TCCRAC 1 cut(s) 1584
Mox20I TGGCCA 1 cut(s) 1316
Mph1103I ATGCAT 1 cut(s) 6
MroXI GAANNNNTTC 1 cut(s) 227
MscI TGGCCA 1 cut(s) 1316
MslI CAYNNNNRTG 2 cut(s) 462, 1310
Msp20I TGGCCA 1 cut(s) 1316
MspI CCGG 2 cut(s) 890, 1276
MwoI GCNNNNNNNGC 1 cut(s) 1137
NdeI CATATG 2 cut(s) 436, 1213
NdeII GATC 3 cut(s) 744, 1360, 1542
NlaIII CATG 6 cut(s) 323, 700, 954, 1309, 1321, 1334
NlaIV GGNNCC 3 cut(s) 1146, 1620, 1694
NmeAIII GCCGAG 1 cut(s) 1173
NsiI ATGCAT 1 cut(s) 6
NspI RCATGY 1 cut(s) 954
PciI ACATGT 1 cut(s) 950
PdmI GAANNNNTTC 1 cut(s) 227
PfeI GAWTC 3 cut(s) 100, 173, 1480
PkrI GCNGC 5 cut(s) 238, 400, 895, 980, 1474
PleI GAGTC 2 cut(s) 43, 258
PpsI GAGTC 2 cut(s) 43, 258
Ppu21I YACGTR 2 cut(s) 1056, 1161
PscI ACATGT 1 cut(s) 950
PshBI ATTAAT 3 cut(s) 690, 966, 1071
PsiI TTATAA 1 cut(s) 735
Psp124BI GAGCTC 1 cut(s) 140
PspN4I GGNNCC 3 cut(s) 1146, 1620, 1694
PspPI GGNCC 2 cut(s) 609, 1618
RsaI GTAC 9 cut(s) 192, 206, 296, 620, 785, 844, 888, 1058, 1163
RsaNI GTAC 9 cut(s) 191, 205, 295, 619, 784, 843, 887, 1057, 1162
RseI CAYNNNNRTG 2 cut(s) 462, 1310
SacI GAGCTC 1 cut(s) 140
SatI GCNGC 5 cut(s) 237, 399, 894, 979, 1473
Sau3AI GATC 3 cut(s) 744, 1360, 1542
Sau96I GGNCC 2 cut(s) 609, 1618
ScaI AGTACT 1 cut(s) 192
SchI GAGTC 2 cut(s) 43, 258
SduI GDGCHC 2 cut(s) 140, 1492
SfaNI GCATC 4 cut(s) 13, 784, 1168, 1567
SinI GGWCC 1 cut(s) 1618
SmiMI CAYNNNNRTG 2 cut(s) 462, 1310
SmlI CTYRAG 1 cut(s) 1351
SmoI CTYRAG 1 cut(s) 1351
SnaBI TACGTA 2 cut(s) 1056, 1161
SsiI CCGC 2 cut(s) 896, 979
SspI AATATT 1 cut(s) 853
SspMI CTAG 2 cut(s) 1107, 1710
SstI GAGCTC 1 cut(s) 140
StyI CCWWGG 1 cut(s) 1188
TaiI ACGT 4 cut(s) 626, 1058, 1163, 1382
TaqI TCGA 3 cut(s) 747, 1119, 1262
TatI WGTACW 4 cut(s) 190, 618, 783, 842
TauI GCSGC 1 cut(s) 981
TfiI GAWTC 3 cut(s) 100, 173, 1480
TscAI CASTG 4 cut(s) 114, 966, 1474, 1497
TseI GCWGC 4 cut(s) 236, 398, 893, 1472
TspDTI ATGAA 9 cut(s) 149, 264, 354, 713, 1112, 1334, 1347, 1611, 1676
TspRI CASTG 4 cut(s) 114, 966, 1474, 1497
VpaK11BI GGWCC 1 cut(s) 1618
VspI ATTAAT 3 cut(s) 690, 966, 1071
XapI RAATTY 5 cut(s) 18, 352, 403, 445, 572
XceI RCATGY 1 cut(s) 954
XmnI GAANNNNTTC 1 cut(s) 227
XspI CTAG 2 cut(s) 1107, 1710
ZrmI AGTACT 1 cut(s) 192
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.