Rroxscaffold_3G00271770

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0017728
Physical Location & Seq
Forward (+)
64120977 .. 64128984
8008 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00271770.1

Sequence Viewer

Length: 1587 bp
ATGAGGAATTGCAAAGGAGCAGAGAGGTGGCAATACCTGGTTGGTAAAGAAGCCAAGACTTATATTATTGGGGACTATGATCGAGTTAGGCAAAGTGTGGATGATGATTTCTATTTCAGTGTAAATATGCCATTAGGGAAAAGTCCCCACAACATATTTCACAAGGCACAAAGGGTCATGACCCTTTTCAAGCAGTGTACCACCATGAAAGAGGTCAAGCAACTCCACGCCCATATAACCCACAACGGGCTCGATCAAACCCTCTGTGTTCTCGGCAAGGTCATCTCATTTTGCGCGGTTTCGGACCTCGGAGACATGGACTATGCGGCCTCTGTGTTCAGCAGCATTGAAAGCCCAGATGGGTTTTTATGGAACACCATGATTAGAGGGTTTGGGAAGACTGATAAGCCCGAAAGGGCGTTTGAGTTTTGTAAGAGAATGCAGGAGAAAGGAAATGTAGCCGACAATTTTACCCTCTCGTTCTTGCTCAAGGTTTCTGGGCAATTGGGATCGGATATATTGGGGAAGCAGATACATTGTACTGCTGTGAAATATGGGTTTGATTCTAATGTGTTTGTGAGGAACACCCTAATCCATATGTATGGTATGTTTGGGGATGCAAAAACTGCTCTCCACCTGTTCGATGAAATGCCTAGCCCAGATATAGTGGCGTGGAAGACCATTATTGATAGTCATGTGAATTGCGGAAAGTGCAAGGAAGCGCTAGATTTGTTCTTGAGGATGATGGATAGGGGTGTAGAGCCTGACGAGGCTACTGTGGTTGTGACCCTCTCGGCATGTTCTACATTGGGTGCTTTAGATTTTGGGAGGTGGGTACATTGTTTGGTTGATCATACGGATCTTGGCAACGTTGTGACGGTGTCTAATTCGTTAATTGACATGTATGCGAAATGTGGAGCTGTTGAAGAAGCGTATGATGCTTTTAATAAGATGAAGGGGAAGAAGAACATAGTATCTTGGAACACGATGATTCTCGGGCTTGCGACGCATGGTCATGCGGACAAATCTTTGGAACTGTTCTTGAAAATGTTGGAGGAGAAGCTTGAGAGACCGGATGATGTTACTTTCGTGGGAGTTCTGTGTGCTTGCAGTCATGGAGGGATGGTTGATGAAGGAAGAAGATATTTTGAAATTATGAGCAAAGACTATCAGATTCAACCAACAGTGAAGCACTACGGATGCATGGTTGATATGTTGGGGCGAGCTGGGTTTGTGGAGGAGGCTTATAGGTTGATAAGGAGCATGCCGGTTAAGTGTAATGCCATTGTATGGAGGACATTGTTGTCGGCGTGTCAGGTGCACGGTGAGGTCGAGCTTGGAGAGAAGGTCAGGAGTCATCTTTTGGAGTTGGATTCAGATCATAGCAGCGATTATGTGCTTCTGGCTAACACGTATGCAAGTTTAGGCCAGTGGAATGAAGCTATGAGAGTAAGAAGATCAATGCAGTACAGGGGAGTTGAGAAACCTGAGCCTGGTAATAGCTTGGTTGGCGCAGATCTTCATATGAAGTTGAAAATGGACTCAACTGAAGCCTATTCTGAAGATATAAATGCAGCAGTTTACTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
PPR PPR_2

Protein Analysis

528

Amino Acids

59.37

Weight (kDa)

6.1

Isoelectric Point (pI)

39.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 119 - 164 5.5e-08 PPR repeat family
PPR PF01535 123 - 151 6.5e-07 PPR repeat
PPR_2 PF13041 220 - 268 1.5e-10 PPR repeat family
PPR_2 PF13041 322 - 371 1.5e-07 PPR repeat family
E_motif PF20431 441 - 503 6.7e-15 E motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0017728)

Species Orthologous Gene IDs
malus_domestica MD06G1195900.v1.1
prunus_persica Prupe.5G195700_v2.0.a1
pyrus_communis pycom06g17310
rosa_chinensis RchiOBHm_Chr7g0181731
rosa_laevigata RLG00000005173
rosa_multiflora Rmu_sc0000988.1_g000008
rosa_roxburghii Rroxscaffold_3G00271770
rosa_rugosa Rorug06G0443000
rosa_samantha Rh7AG045600 Rh7BG044800 Rh7CG046300
rosa_wichuraiana Rw7G003800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 1303
AccB7I CCANNNNNTGG 1 cut(s) 1290
AccII CGCG 1 cut(s) 296
AciI CCGC 4 cut(s) 296, 326, 705, 1019
AclI AACGTT 1 cut(s) 870
AclWI GGATC 2 cut(s) 517, 867
AcuI CTGAAG 2 cut(s) 1569, 1581
AfaI GTAC 4 cut(s) 199, 541, 837, 1469
AfeI AGCGCT 1 cut(s) 723
AfiI CCNNNNNNNGG 3 cut(s) 246, 1290, 1493
AflIII ACRYGT 2 cut(s) 900, 1410
AgsI TTSAA 7 cut(s) 190, 350, 926, 1045, 1151, 1178, 1534
AhdI GACNNNNNGTC 1 cut(s) 1011
AjnI CCWGG 2 cut(s) 36, 1492
AluBI AGCT 6 cut(s) 920, 1063, 1226, 1336, 1442, 1503
AluI AGCT 6 cut(s) 920, 1063, 1226, 1336, 1442, 1503
Alw21I GWGCWC 1 cut(s) 1323
Alw26I GTCTC 2 cut(s) 306, 1063
Alw44I GTGCAC 1 cut(s) 1319
AlwI GGATC 2 cut(s) 517, 867
Ama87I CYCGRG 1 cut(s) 995
Aor51HI AGCGCT 1 cut(s) 723
AoxI GGCC 2 cut(s) 327, 1426
ApaLI GTGCAC 1 cut(s) 1319
ApeKI GCWGC 3 cut(s) 342, 1386, 1574
AspLEI GCGC 3 cut(s) 296, 724, 1514
AspS9I GGNCC 1 cut(s) 304
AsuHPI GGTGA 1 cut(s) 1337
AvaI CYCGRG 1 cut(s) 995
AvaII GGWCC 1 cut(s) 304
BaeGI GKGCMC 1 cut(s) 1323
BanII GRGCYC 1 cut(s) 252
BbsI GAAGAC 2 cut(s) 404, 683
Bbv12I GWGCWC 1 cut(s) 1323
BbvI GCAGC 2 cut(s) 354, 1398
BccI CCATC 3 cut(s) 353, 739, 1117
BciT130I CCWGG 2 cut(s) 38, 1494
BclI TGATCA 1 cut(s) 850
BcoDI GTCTC 2 cut(s) 306, 1063
BfaI CTAG 3 cut(s) 654, 725, 1585
BfoI RGCGCY 1 cut(s) 725
BglII AGATCT 1 cut(s) 1516
BisI GCNGC 4 cut(s) 327, 343, 1387, 1575
BlsI GCNGC 4 cut(s) 328, 344, 1388, 1576
Bme1390I CCNGG 2 cut(s) 38, 1494
Bme18I GGWCC 1 cut(s) 304
BmeRI GACNNNNNGTC 1 cut(s) 1011
BmeT110I CYCGRG 1 cut(s) 995
BmgT120I GGNCC 1 cut(s) 304
BmrFI CCNGG 2 cut(s) 38, 1494
BmsI GCATC 3 cut(s) 607, 928, 1190
BpiI GAAGAC 2 cut(s) 404, 683
Bpu10I CCTNAGC 1 cut(s) 1488
BpuEI CTTGAG 3 cut(s) 473, 757, 1085
BsaAI YACGTR 1 cut(s) 1413
BsaBI GATNNNNATC 1 cut(s) 1377
BsaI GGTCTC 1 cut(s) 1063
BsaJI CCNNGG 1 cut(s) 307
BsaWI WCCGGW 1 cut(s) 1072
BsaXI ACNNNNNCTCC 4 cut(s) 1110, 1140, 1332, 1362
Bsc4I CCNNNNNNNGG 3 cut(s) 246, 1290, 1493
Bse118I RCCGGY 1 cut(s) 1267
Bse1I ACTGG 1 cut(s) 1429
Bse8I GATNNNNATC 1 cut(s) 1377
BseBI CCWGG 2 cut(s) 38, 1494
BseDI CCNNGG 1 cut(s) 307
BseGI GGATG 6 cut(s) 106, 622, 747, 1081, 1128, 1205
BseJI GATNNNNATC 1 cut(s) 1377
BseLI CCNNNNNNNGG 3 cut(s) 246, 1290, 1493
BseMII CTCAG 1 cut(s) 1479
BseNI ACTGG 1 cut(s) 1429
BseRI GAGGAG 2 cut(s) 1070, 1253
BseSI GKGCMC 1 cut(s) 1323
BseXI GCAGC 2 cut(s) 354, 1398
BseYI CCCAGC 1 cut(s) 1226
Bsh1236I CGCG 1 cut(s) 296
BshFI GGCC 2 cut(s) 329, 1428
BsiHKAI GWGCWC 1 cut(s) 1323
BsiHKCI CYCGRG 1 cut(s) 995
BsiSI CCGG 2 cut(s) 1073, 1268
BslFI GGGAC 2 cut(s) 86, 129
BslI CCNNNNNNNGG 3 cut(s) 246, 1290, 1493
BsmAI GTCTC 2 cut(s) 306, 1063
BsmFI GGGAC 2 cut(s) 86, 129
BsmI GAATGC 1 cut(s) 444
BsnI GGCC 2 cut(s) 329, 1428
Bso31I GGTCTC 1 cut(s) 1063
BsoBI CYCGRG 1 cut(s) 995
Bsp1286I GDGCHC 2 cut(s) 252, 1323
Bsp143I GATC 8 cut(s) 79, 253, 509, 850, 859, 1378, 1457, 1516
BspACI CCGC 4 cut(s) 296, 326, 705, 1019
BspANI GGCC 2 cut(s) 329, 1428
BspCNI CTCAG 1 cut(s) 1480
BspFNI CGCG 1 cut(s) 296
BspHI TCATGA 1 cut(s) 177
BspPI GGATC 2 cut(s) 517, 867
BspTNI GGTCTC 1 cut(s) 1063
BsrFI RCCGGY 1 cut(s) 1267
BsrI ACTGG 1 cut(s) 1429
BssAI RCCGGY 1 cut(s) 1267
BssECI CCNNGG 1 cut(s) 307
BssMI GATC 8 cut(s) 79, 253, 509, 850, 859, 1378, 1457, 1516
Bst2UI CCWGG 2 cut(s) 38, 1494
Bst4CI ACNGT 5 cut(s) 778, 880, 1038, 1186, 1325
BstAPI GCANNNNNTGC 1 cut(s) 626
BstBAI YACGTR 1 cut(s) 1413
BstC8I GCNNGC 4 cut(s) 1002, 1108, 1224, 1265
BstDEI CTNAG 1 cut(s) 1488
BstF5I GGATG 6 cut(s) 106, 622, 747, 1081, 1128, 1205
BstFNI CGCG 1 cut(s) 296
BstH2I RGCGCY 1 cut(s) 725
BstHHI GCGC 3 cut(s) 296, 724, 1514
BstKTI GATC 8 cut(s) 82, 256, 512, 853, 862, 1381, 1460, 1519
BstMAI GTCTC 2 cut(s) 306, 1063
BstMBI GATC 8 cut(s) 79, 253, 509, 850, 859, 1378, 1457, 1516
BstMWI GCNNNNNNNGC 6 cut(s) 351, 626, 711, 938, 1006, 1509
BstNI CCWGG 2 cut(s) 38, 1494
BstNSI RCATGY 3 cut(s) 801, 904, 1267
BstSCI CCNGG 2 cut(s) 36, 1492
BstSLI GKGCMC 1 cut(s) 1323
BstUI CGCG 1 cut(s) 296
BstV1I GCAGC 2 cut(s) 354, 1398
BstV2I GAAGAC 2 cut(s) 404, 683
BstX2I RGATCY 2 cut(s) 859, 1516
BstXI CCANNNNNNTGG 1 cut(s) 602
BstYI RGATCY 2 cut(s) 859, 1516
BsuRI GGCC 2 cut(s) 329, 1428
BtsCI GGATG 6 cut(s) 106, 622, 747, 1081, 1128, 1205
BtsI GCAGTG 1 cut(s) 200
BtsIMutI CAGTG 4 cut(s) 124, 200, 1191, 1436
Cac8I GCNNGC 4 cut(s) 1002, 1108, 1224, 1265
CciI TCATGA 1 cut(s) 177
CfoI GCGC 3 cut(s) 296, 724, 1514
Cfr10I RCCGGY 1 cut(s) 1267
Cfr13I GGNCC 1 cut(s) 304
CseI GACGC 1 cut(s) 1015
CsiI ACCWGGT 1 cut(s) 36
Csp6I GTAC 4 cut(s) 198, 540, 836, 1468
CviQI GTAC 4 cut(s) 198, 540, 836, 1468
DdeI CTNAG 1 cut(s) 1488
DpnI GATC 8 cut(s) 81, 255, 511, 852, 861, 1380, 1459, 1518
DpnII GATC 8 cut(s) 79, 253, 509, 850, 859, 1378, 1457, 1516
DrdI GACNNNNNNGTC 1 cut(s) 1303
DriI GACNNNNNGTC 1 cut(s) 1011
DseDI GACNNNNNNGTC 1 cut(s) 1303
Eam1105I GACNNNNNGTC 1 cut(s) 1011
Eco24I GRGCYC 1 cut(s) 252
Eco31I GGTCTC 1 cut(s) 1063
Eco47I GGWCC 1 cut(s) 304
Eco47III AGCGCT 1 cut(s) 723
Eco57I CTGAAG 2 cut(s) 1569, 1581
Eco88I CYCGRG 1 cut(s) 995
EcoRII CCWGG 2 cut(s) 36, 1492
EcoT22I ATGCAT 1 cut(s) 1205
EcoT38I GRGCYC 1 cut(s) 252
FaqI GGGAC 2 cut(s) 86, 129
FauNDI CATATG 2 cut(s) 597, 1524
FbaI TGATCA 1 cut(s) 850
Fnu4HI GCNGC 4 cut(s) 327, 343, 1387, 1575
FokI GGATG 6 cut(s) 113, 629, 754, 1088, 1135, 1212
FriOI GRGCYC 1 cut(s) 252
Fsp4HI GCNGC 4 cut(s) 327, 343, 1387, 1575
FspBI CTAG 3 cut(s) 654, 725, 1585
GlaI GCGC 3 cut(s) 295, 723, 1513
GluI GCNGC 4 cut(s) 327, 343, 1387, 1575
GsaI CCCAGC 1 cut(s) 1230
HaeII RGCGCY 1 cut(s) 725
HaeIII GGCC 2 cut(s) 329, 1428
HapII CCGG 2 cut(s) 1073, 1268
HgaI GACGC 1 cut(s) 1015
HhaI GCGC 3 cut(s) 296, 724, 1514
Hin6I GCGC 3 cut(s) 294, 722, 1512
HinP1I GCGC 3 cut(s) 294, 722, 1512
HindIII AAGCTT 1 cut(s) 1061
HinfI GANTC 6 cut(s) 563, 991, 1174, 1354, 1373, 1541
HpaII CCGG 2 cut(s) 1073, 1268
HphI GGTGA 1 cut(s) 1337
Hpy166II GTNNAC 3 cut(s) 198, 1321, 1582
Hpy188I TCNGA 6 cut(s) 304, 311, 514, 1173, 1378, 1561
Hpy188III TCNNGA 4 cut(s) 178, 736, 1042, 1351
Hpy8I GTNNAC 3 cut(s) 198, 1321, 1582
Hpy99I CGWCG 1 cut(s) 1009
HpyAV CCTTC 3 cut(s) 949, 1127, 1339
HpyCH4III ACNGT 5 cut(s) 778, 880, 1038, 1186, 1325
HpyCH4IV ACGT 2 cut(s) 870, 1412
HpyF10VI GCNNNNNNNGC 6 cut(s) 351, 626, 711, 938, 1006, 1509
HpyF3I CTNAG 1 cut(s) 1488
HpySE526I ACGT 2 cut(s) 870, 1412
HspAI GCGC 3 cut(s) 294, 722, 1512
Ksp22I TGATCA 1 cut(s) 850
Kzo9I GATC 8 cut(s) 79, 253, 509, 850, 859, 1378, 1457, 1516
LmnI GCTCC 3 cut(s) 17, 917, 1260
Lsp1109I GCAGC 2 cut(s) 354, 1398
LweI GCATC 3 cut(s) 607, 928, 1190
MabI ACCWGGT 1 cut(s) 36
MaeI CTAG 3 cut(s) 654, 725, 1585
MaeII ACGT 2 cut(s) 870, 1412
MaeIII GTNAC 3 cut(s) 784, 874, 1081
MalI GATC 8 cut(s) 81, 255, 511, 852, 861, 1380, 1459, 1518
MboI GATC 8 cut(s) 79, 253, 509, 850, 859, 1378, 1457, 1516
MfeI CAATTG 1 cut(s) 503
MflI RGATCY 2 cut(s) 859, 1516
MhlI GDGCHC 2 cut(s) 252, 1323
MluCI AATT 7 cut(s) 7, 466, 503, 700, 886, 894, 1152
MlyI GAGTC 2 cut(s) 1363, 1535
MmeI TCCRAC 2 cut(s) 1032, 1350
Mph1103I ATGCAT 1 cut(s) 1205
MseI TTAA 3 cut(s) 893, 945, 1272
MslI CAYNNNNRTG 2 cut(s) 600, 1014
MspI CCGG 2 cut(s) 1073, 1268
MspR9I CCNGG 2 cut(s) 38, 1494
MunI CAATTG 1 cut(s) 503
Mva1269I GAATGC 1 cut(s) 444
MvaI CCWGG 2 cut(s) 38, 1494
MvnI CGCG 1 cut(s) 296
MwoI GCNNNNNNNGC 6 cut(s) 351, 626, 711, 938, 1006, 1509
NdeI CATATG 2 cut(s) 597, 1524
NdeII GATC 8 cut(s) 79, 253, 509, 850, 859, 1378, 1457, 1516
NmeAIII GCCGAG 2 cut(s) 252, 773
NmuCI GTSAC 2 cut(s) 784, 874
NsiI ATGCAT 1 cut(s) 1205
NspI RCATGY 3 cut(s) 801, 904, 1267
PaeI GCATGC 1 cut(s) 1267
PagI TCATGA 1 cut(s) 177
PciI ACATGT 1 cut(s) 900
PcsI WCGNNNNNNNCGW 1 cut(s) 1329
PctI GAATGC 1 cut(s) 444
PfeI GAWTC 4 cut(s) 563, 991, 1174, 1373
PflFI GACNNNGTC 1 cut(s) 880
PflMI CCANNNNNTGG 1 cut(s) 1290
PkrI GCNGC 4 cut(s) 328, 344, 1388, 1576
PleI GAGTC 2 cut(s) 1362, 1535
PpsI GAGTC 2 cut(s) 1362, 1535
Ppu21I YACGTR 1 cut(s) 1413
PscI ACATGT 1 cut(s) 900
Psp1406I AACGTT 1 cut(s) 870
Psp6I CCWGG 2 cut(s) 36, 1492
PspFI CCCAGC 1 cut(s) 1226
PspGI CCWGG 2 cut(s) 36, 1492
PspPI GGNCC 1 cut(s) 304
PsuI RGATCY 2 cut(s) 859, 1516
PsyI GACNNNGTC 1 cut(s) 880
RsaI GTAC 4 cut(s) 199, 541, 837, 1469
RsaNI GTAC 4 cut(s) 198, 540, 836, 1468
RseI CAYNNNNRTG 2 cut(s) 600, 1014
SaqAI TTAA 3 cut(s) 893, 945, 1272
SatI GCNGC 4 cut(s) 327, 343, 1387, 1575
Sau3AI GATC 8 cut(s) 79, 253, 509, 850, 859, 1378, 1457, 1516
Sau96I GGNCC 1 cut(s) 304
SchI GAGTC 2 cut(s) 1363, 1535
ScrFI CCNGG 2 cut(s) 38, 1494
SduI GDGCHC 2 cut(s) 252, 1323
SexAI ACCWGGT 1 cut(s) 36
SfaNI GCATC 3 cut(s) 607, 928, 1190
SinI GGWCC 1 cut(s) 304
SmiMI CAYNNNNRTG 2 cut(s) 600, 1014
SmlI CTYRAG 3 cut(s) 488, 736, 1064
SmoI CTYRAG 3 cut(s) 488, 736, 1064
SphI GCATGC 1 cut(s) 1267
Sse9I AATT 7 cut(s) 7, 466, 503, 700, 886, 894, 1152
SsiI CCGC 4 cut(s) 296, 326, 705, 1019
SspMI CTAG 3 cut(s) 654, 725, 1585
StyD4I CCNGG 2 cut(s) 36, 1492
TaaI ACNGT 5 cut(s) 778, 880, 1038, 1186, 1325
TaiI ACGT 2 cut(s) 873, 1415
TaqI TCGA 4 cut(s) 82, 252, 642, 1332
TasI AATT 7 cut(s) 7, 466, 503, 700, 886, 894, 1152
TatI WGTACW 2 cut(s) 539, 1467
TauI GCSGC 1 cut(s) 329
TfiI GAWTC 4 cut(s) 563, 991, 1174, 1373
Tru1I TTAA 3 cut(s) 893, 945, 1272
Tru9I TTAA 3 cut(s) 893, 945, 1272
TscAI CASTG 4 cut(s) 124, 200, 1191, 1436
TseFI GTSAC 2 cut(s) 784, 874
TseI GCWGC 3 cut(s) 342, 1386, 1574
Tsp45I GTSAC 2 cut(s) 784, 874
TspDTI ATGAA 7 cut(s) 221, 660, 968, 1146, 1452, 1511, 1541
TspGWI ACGGA 2 cut(s) 872, 1212
TspRI CASTG 4 cut(s) 124, 200, 1191, 1436
Tth111I GACNNNGTC 1 cut(s) 880
Van91I CCANNNNNTGG 1 cut(s) 1290
VneI GTGCAC 1 cut(s) 1319
VpaK11BI GGWCC 1 cut(s) 304
XceI RCATGY 3 cut(s) 801, 904, 1267
XspI CTAG 3 cut(s) 654, 725, 1585
Zsp2I ATGCAT 1 cut(s) 1205
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.