Rh3CG093000

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3C
OG0014411
Physical Location & Seq
Forward (+)
7265805 .. 7284468
18664 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3CG093000.1

Sequence Viewer

Length: 1494 bp
ATGTCGACAAACCATGCCTTCCAAGCTTCGAAAACCAAAGCCATCCTAACCCTCTTGCAAGGATGCAACACCCTCAAAAGGCTCAGAAAAGTCCACGCCCACGTCATCACCAACGGTCTTCAACACCACCCTTCCATTTCCAACAAGCTCCTCAACTTCTGCGCCGTCTCCGTCTCAGGCAGCTTACCCTACGCTCAGCTGCTCTTCCATTATCACATCCCAAACCCACAAACCCAAGACTGGAATTCCATGATCAGAGGCTTCTCCCAAAGCCCATCTCCTCTTCAAGCCATTTCTTACTACAACCACATGCTTTCGTCCTCCTCCGCTTCCGATTGCCCACCCGACACGTTTAGCTTCTCGTTTGTGCTCAAGGCTTGCGAGAGAGTCAGGGCAGAGAGCAAGTGCCGAGAGGTTCATGGAGTTGTGGTTCGCCATGGTTATGATGTGGACGTTGTTGTTTGCACCAATTTGATGAAGTCTTATGCTGGCAGTGGGTCAGTTGATAATGCACGGAGAGTGTTCGACGAAATGTCTGAGAGAGACTTGGTGTGTTGGAATTCCATGATCTCGTGCTACTCTCAAGCGGGTCTTCACCATGAGGCGTTGAATATATATAGTCTTATGAGAAATCAAAATGTGGGTCTTGATGGGTTCACTCTTGTTGGGTTGCTTTCGTCTTGTGCTCACTTGGGTGCGTTGAACACCGGAGTCACAATGCATGAACTTGCTCGTCAGAAGGGGTTTTTGGGAAGTGTTTATGTTGGCAATGCGCTTATAGATATGTACGCAAAATGTGGTGACTTGGATGGTGCTCTTTGTGTCTTTGAGAGAATGAGAAAGCGGGATGCTTTTACGTGGAACTCCATGATTGTTGGGTATGGAGTACATGGTCGCGGGGACGAAGCAATCTATTTTTTTGAGAAGATGATGATGGCAGGTGTGCAGCCGAATTCCATCACATTTCTCGGTTTGTTGTGTGGGTGTAGTCACCAAGGATTAGTAAAGAAGGGTGTTGATTACTTCCATATGATGAGCTCCAAGTTCAATATCAAACCTGGAATTAAGCACTATGGGTGTCTGGTGGATCTGTTTGGTCGAGCTGGGAAGCTCGAGAAGGCGCTTCATGTTATTAGGACATCACATGCACAGGATGATCCAGTTCTATGGCGGACTCTGCTCAGCTCTTGCAAGATTCATAAAAACGTGGAAATAGGAGAAGTTGCCTTGAAGAATCTAATCCGTTTAGGGTCATCAAATGCAGGGGACTACGTACTTCTTGCCACTATTTATTTTAGGGCGAAAGATGCAGATGGTGTTTCAAGGATGAGAAAATTGATTAAAAACCAGGGAGTGAGGACCACTCCTGGTTGGAGCTGGATTGAAGTTGGCGATCAGGTTCACAAATTTGTAGTGGATGACAAGTCACATCCAGATACTGAAGAAATCTATCGAAAATTGGAGGTTCGGGTTCTAATTTATTTCTTTGTATGA

Protein Analysis

497

Amino Acids

55.49

Weight (kDa)

8.96

Isoelectric Point (pI)

36.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 182 - 230 1.3e-07 PPR repeat family
PPR PF01535 184 - 213 2.7e-07 PPR repeat
PPR_2 PF13041 283 - 330 6.2e-11 PPR repeat family
PPR PF01535 285 - 315 3.4e-07 PPR repeat
E_motif PF20431 400 - 462 1.9e-14 E motif
Eplus_motif PF20430 467 - 488 9.3e-06 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: OG0014411)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G56550 AT3G56550
fragaria_vesca FvH4_6g08690
malus_domestica MD04G1184300.v1.1 MD12G1197500.v1.1
prunus_persica Prupe.6G302800_v2.0.a1
pyrus_communis pycom04g16330 pycom12g18380
rosa_chinensis RchiOBHm_Chr3g0458831
rosa_laevigata RLG00000025132
rosa_multiflora Rmu_co8385739.1_g000001
rosa_roxburghii Rroxscaffold_6G00420760
rosa_rugosa Rorug03G0032200
rosa_samantha Rh3BG092700 Rh3CG093000 Rh3DG093700
rosa_wichuraiana Rw3G007690

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 929
Acc36I ACCTGC 1 cut(s) 929
AccI GTMKAC 1 cut(s) 5
AccII CGCG 1 cut(s) 897
AciI CCGC 5 cut(s) 327, 587, 844, 897, 1171
AclWI GGATC 2 cut(s) 1095, 1151
AcsI RAATTY 4 cut(s) 244, 559, 952, 1406
AcuI CTGAAG 1 cut(s) 1461
AfaI GTAC 3 cut(s) 788, 888, 1275
AfiI CCNNNNNNNGG 2 cut(s) 78, 240
AflIII ACRYGT 1 cut(s) 348
AgsI TTSAA 8 cut(s) 122, 287, 610, 703, 1048, 1231, 1323, 1385
AhdI GACNNNNNGTC 1 cut(s) 532
AjiI CACGTC 1 cut(s) 103
AjnI CCWGG 3 cut(s) 1057, 1347, 1366
AjuI GAANNNNNNNTTGG 2 cut(s) 731, 763
AleI CACNNNNGTG 1 cut(s) 693
AloI GAACNNNNNNTCC 2 cut(s) 414, 446
Alw21I GWGCWC 4 cut(s) 372, 688, 817, 1040
Alw26I GTCTC 3 cut(s) 172, 178, 537
AlwI GGATC 2 cut(s) 1095, 1151
AlwNI CAGNNNCTG 1 cut(s) 1439
Ama87I CYCGRG 1 cut(s) 1112
ApeKI GCWGC 3 cut(s) 180, 199, 946
ApoI RAATTY 4 cut(s) 244, 559, 952, 1406
ArsI GACNNNNNNTTYG 2 cut(s) 628, 660
AspLEI GCGC 3 cut(s) 164, 775, 1123
AspS9I GGNCC 1 cut(s) 1359
AsuHPI GGTGA 4 cut(s) 100, 587, 812, 983
AsuII TTCGAA 1 cut(s) 29
AvaI CYCGRG 1 cut(s) 1112
AvaII GGWCC 1 cut(s) 1359
BanII GRGCYC 1 cut(s) 1040
BauI CACGAG 1 cut(s) 571
BbsI GAAGAC 2 cut(s) 110, 584
Bbv12I GWGCWC 4 cut(s) 372, 688, 817, 1040
BbvI GCAGC 3 cut(s) 186, 192, 958
BccI CCATC 7 cut(s) 50, 283, 644, 803, 928, 965, 1307
BceAI ACGGC 1 cut(s) 149
BciT130I CCWGG 3 cut(s) 1059, 1349, 1368
BclI TGATCA 1 cut(s) 252
BcoDI GTCTC 3 cut(s) 172, 178, 537
BfoI RGCGCY 1 cut(s) 1124
BfuAI ACCTGC 1 cut(s) 929
BisI GCNGC 3 cut(s) 181, 200, 947
BlpI GCTNAGC 2 cut(s) 195, 1181
BlsI GCNGC 3 cut(s) 182, 201, 948
Bme1390I CCNGG 3 cut(s) 1059, 1349, 1368
Bme18I GGWCC 1 cut(s) 1359
BmeRI GACNNNNNGTC 1 cut(s) 532
BmeT110I CYCGRG 1 cut(s) 1112
BmgBI CACGTC 1 cut(s) 103
BmgT120I GGNCC 1 cut(s) 1359
BmrFI CCNGG 3 cut(s) 1059, 1349, 1368
BmsI GCATC 3 cut(s) 53, 838, 1297
BpiI GAAGAC 2 cut(s) 110, 584
BplI GAGNNNNNCTC 2 cut(s) 1348, 1380
Bpu1102I GCTNAGC 2 cut(s) 195, 1181
Bpu14I TTCGAA 1 cut(s) 29
BpuEI CTTGAG 2 cut(s) 356, 567
BsaAI YACGTR 2 cut(s) 858, 1273
BsaJI CCNNGG 3 cut(s) 436, 994, 1348
BsaWI WCCGGW 1 cut(s) 707
BsaXI ACNNNNNCTCC 2 cut(s) 414, 444
Bsc4I CCNNNNNNNGG 2 cut(s) 78, 240
Bse1I ACTGG 2 cut(s) 245, 1160
Bse3DI GCAATG 1 cut(s) 775
BseBI CCWGG 3 cut(s) 1059, 1349, 1368
BseDI CCNNGG 3 cut(s) 436, 994, 1348
BseGI GGATG 9 cut(s) 42, 68, 216, 814, 853, 1159, 1332, 1423, 1429
BseLI CCNNNNNNNGG 2 cut(s) 78, 240
BseMI GCAATG 1 cut(s) 775
BseMII CTCAG 5 cut(s) 97, 189, 209, 528, 1195
BseNI ACTGG 2 cut(s) 245, 1160
BseRI GAGGAG 3 cut(s) 140, 270, 313
BseXI GCAGC 3 cut(s) 186, 192, 958
BseYI CCCAGC 1 cut(s) 1103
BsgI GTGCAG 1 cut(s) 965
Bsh1236I CGCG 1 cut(s) 897
BsiHKAI GWGCWC 4 cut(s) 372, 688, 817, 1040
BsiHKCI CYCGRG 1 cut(s) 1112
BsiSI CCGG 1 cut(s) 708
BslFI GGGAC 2 cut(s) 914, 1280
BslI CCNNNNNNNGG 2 cut(s) 78, 240
BsmAI GTCTC 3 cut(s) 172, 178, 537
BsmBI CGTCTC 2 cut(s) 172, 178
BsmFI GGGAC 2 cut(s) 914, 1280
BsoBI CYCGRG 1 cut(s) 1112
Bsp119I TTCGAA 1 cut(s) 29
Bsp1286I GDGCHC 4 cut(s) 372, 688, 817, 1040
Bsp143I GATC 5 cut(s) 252, 567, 1087, 1156, 1393
Bsp1720I GCTNAGC 2 cut(s) 195, 1181
Bsp19I CCATGG 1 cut(s) 436
BspACI CCGC 5 cut(s) 327, 587, 844, 897, 1171
BspCNI CTCAG 5 cut(s) 96, 188, 208, 529, 1194
BspFNI CGCG 1 cut(s) 897
BspMI ACCTGC 1 cut(s) 929
BspPI GGATC 2 cut(s) 1095, 1151
BspQI GCTCTTC 1 cut(s) 209
BspT104I TTCGAA 1 cut(s) 29
BsrDI GCAATG 1 cut(s) 775
BsrI ACTGG 2 cut(s) 245, 1160
BssECI CCNNGG 3 cut(s) 436, 994, 1348
BssMI GATC 5 cut(s) 252, 567, 1087, 1156, 1393
BssSI CACGAG 1 cut(s) 571
BssT1I CCWWGG 2 cut(s) 436, 994
Bst2BI CACGAG 1 cut(s) 571
Bst2UI CCWGG 3 cut(s) 1059, 1349, 1368
Bst4CI ACNGT 1 cut(s) 116
Bst6I CTCTTC 2 cut(s) 209, 288
BstBAI YACGTR 2 cut(s) 858, 1273
BstBI TTCGAA 1 cut(s) 29
BstC8I GCNNGC 2 cut(s) 379, 490
BstDEI CTNAG 5 cut(s) 83, 175, 195, 537, 1181
BstDSI CCRYGG 1 cut(s) 436
BstF5I GGATG 9 cut(s) 42, 68, 216, 814, 853, 1159, 1332, 1423, 1429
BstFNI CGCG 1 cut(s) 897
BstH2I RGCGCY 1 cut(s) 1124
BstHHI GCGC 3 cut(s) 164, 775, 1123
BstKTI GATC 5 cut(s) 255, 570, 1090, 1159, 1396
BstMAI GTCTC 3 cut(s) 172, 178, 537
BstMBI GATC 5 cut(s) 252, 567, 1087, 1156, 1393
BstMWI GCNNNNNNNGC 3 cut(s) 23, 1177, 1307
BstNI CCWGG 3 cut(s) 1059, 1349, 1368
BstNSI RCATGY 2 cut(s) 313, 1148
BstSCI CCNGG 3 cut(s) 1057, 1347, 1366
BstSNI TACGTA 1 cut(s) 1273
BstUI CGCG 1 cut(s) 897
BstV1I GCAGC 3 cut(s) 186, 192, 958
BstV2I GAAGAC 2 cut(s) 110, 584
BstX2I RGATCY 1 cut(s) 1087
BstXI CCANNNNNNTGG 1 cut(s) 1167
BstYI RGATCY 1 cut(s) 1087
BtgI CCRYGG 1 cut(s) 436
BtrI CACGTC 1 cut(s) 103
BtsCI GGATG 9 cut(s) 42, 68, 216, 814, 853, 1159, 1332, 1423, 1429
BtsI GCAGTG 1 cut(s) 499
BtsIMutI CAGTG 1 cut(s) 499
BveI ACCTGC 1 cut(s) 929
Cac8I GCNNGC 2 cut(s) 379, 490
CaiI CAGNNNCTG 1 cut(s) 1439
CfoI GCGC 3 cut(s) 164, 775, 1123
Cfr13I GGNCC 1 cut(s) 1359
Csp6I GTAC 3 cut(s) 787, 887, 1274
CviQI GTAC 3 cut(s) 787, 887, 1274
DdeI CTNAG 5 cut(s) 83, 175, 195, 537, 1181
DpnI GATC 5 cut(s) 254, 569, 1089, 1158, 1395
DpnII GATC 5 cut(s) 252, 567, 1087, 1156, 1393
DriI GACNNNNNGTC 1 cut(s) 532
Eam1104I CTCTTC 2 cut(s) 209, 288
Eam1105I GACNNNNNGTC 1 cut(s) 532
EarI CTCTTC 2 cut(s) 209, 288
EciI GGCGGA 1 cut(s) 1186
Ecl136II GAGCTC 1 cut(s) 1038
Eco105I TACGTA 1 cut(s) 1273
Eco130I CCWWGG 2 cut(s) 436, 994
Eco24I GRGCYC 1 cut(s) 1040
Eco47I GGWCC 1 cut(s) 1359
Eco53kI GAGCTC 1 cut(s) 1038
Eco57I CTGAAG 1 cut(s) 1461
Eco88I CYCGRG 1 cut(s) 1112
EcoICRI GAGCTC 1 cut(s) 1038
EcoRI GAATTC 3 cut(s) 244, 559, 952
EcoRII CCWGG 3 cut(s) 1057, 1347, 1366
EcoT14I CCWWGG 2 cut(s) 436, 994
EcoT22I ATGCAT 1 cut(s) 723
EcoT38I GRGCYC 1 cut(s) 1040
ErhI CCWWGG 2 cut(s) 436, 994
Esp3I CGTCTC 2 cut(s) 172, 178
FalI AAGNNNNNCTT 2 cut(s) 576, 608
FaqI GGGAC 2 cut(s) 914, 1280
FauI CCCGC 3 cut(s) 580, 837, 890
FauNDI CATATG 1 cut(s) 1029
FbaI TGATCA 1 cut(s) 252
FblI GTMKAC 1 cut(s) 5
Fnu4HI GCNGC 3 cut(s) 181, 200, 947
FokI GGATG 9 cut(s) 29, 75, 203, 821, 860, 1166, 1339, 1416, 1430
FriOI GRGCYC 1 cut(s) 1040
Fsp4HI GCNGC 3 cut(s) 181, 200, 947
GlaI GCGC 3 cut(s) 163, 774, 1122
GluI GCNGC 3 cut(s) 181, 200, 947
GsaI CCCAGC 1 cut(s) 1107
HaeII RGCGCY 1 cut(s) 1124
HapII CCGG 1 cut(s) 708
HhaI GCGC 3 cut(s) 164, 775, 1123
Hin6I GCGC 3 cut(s) 162, 773, 1121
HinP1I GCGC 3 cut(s) 162, 773, 1121
HincII GTYRAC 1 cut(s) 6
HindII GTYRAC 1 cut(s) 6
HindIII AAGCTT 1 cut(s) 24
HinfI GANTC 5 cut(s) 387, 711, 1174, 1195, 1234
HpaII CCGG 1 cut(s) 708
HphI GGTGA 4 cut(s) 100, 587, 812, 983
Hpy166II GTNNAC 5 cut(s) 6, 94, 451, 657, 1402
Hpy188I TCNGA 5 cut(s) 86, 257, 334, 538, 738
Hpy188III TCNNGA 3 cut(s) 647, 1114, 1433
Hpy8I GTNNAC 5 cut(s) 6, 94, 451, 657, 1402
Hpy99I CGWCG 1 cut(s) 530
HpyAV CCTTC 5 cut(s) 28, 141, 733, 1003, 1111
HpyCH4III ACNGT 1 cut(s) 116
HpyCH4IV ACGT 6 cut(s) 102, 350, 453, 857, 1206, 1272
HpyF10VI GCNNNNNNNGC 3 cut(s) 23, 1177, 1307
HpyF3I CTNAG 5 cut(s) 83, 175, 195, 537, 1181
HpySE526I ACGT 6 cut(s) 102, 350, 453, 857, 1206, 1272
HspAI GCGC 3 cut(s) 162, 773, 1121
Ksp22I TGATCA 1 cut(s) 252
Kzo9I GATC 5 cut(s) 252, 567, 1087, 1156, 1393
LguI GCTCTTC 1 cut(s) 209
LmnI GCTCC 3 cut(s) 153, 1043, 1374
Lsp1109I GCAGC 3 cut(s) 186, 192, 958
LweI GCATC 3 cut(s) 53, 838, 1297
MaeII ACGT 6 cut(s) 102, 350, 453, 857, 1206, 1272
MaeIII GTNAC 4 cut(s) 712, 800, 989, 1425
MalI GATC 5 cut(s) 254, 569, 1089, 1158, 1395
MboI GATC 5 cut(s) 252, 567, 1087, 1156, 1393
MboII GAAGA 7 cut(s) 110, 196, 275, 584, 937, 1243, 1454
MflI RGATCY 1 cut(s) 1087
MhlI GDGCHC 4 cut(s) 372, 688, 817, 1040
MluCI AATT 9 cut(s) 244, 469, 559, 952, 1062, 1334, 1406, 1457, 1476
MlyI GAGTC 3 cut(s) 396, 720, 1168
MmeI TCCRAC 3 cut(s) 165, 536, 1352
Mph1103I ATGCAT 1 cut(s) 723
MseI TTAA 2 cut(s) 1065, 1341
MslI CAYNNNNRTG 2 cut(s) 441, 693
MspA1I CMGCKG 1 cut(s) 199
MspI CCGG 1 cut(s) 708
MspR9I CCNGG 3 cut(s) 1059, 1349, 1368
MvaI CCWGG 3 cut(s) 1059, 1349, 1368
MvnI CGCG 1 cut(s) 897
MwoI GCNNNNNNNGC 3 cut(s) 23, 1177, 1307
NcoI CCATGG 1 cut(s) 436
NdeI CATATG 1 cut(s) 1029
NdeII GATC 5 cut(s) 252, 567, 1087, 1156, 1393
NmeAIII GCCGAG 1 cut(s) 434
NmuCI GTSAC 4 cut(s) 712, 800, 989, 1425
NsiI ATGCAT 1 cut(s) 723
NspI RCATGY 2 cut(s) 313, 1148
NspV TTCGAA 1 cut(s) 29
OliI CACNNNNGTG 1 cut(s) 693
PaeR7I CTCGAG 1 cut(s) 1112
PaqCI CACCTGC 1 cut(s) 929
PciSI GCTCTTC 1 cut(s) 209
PfeI GAWTC 2 cut(s) 1195, 1234
PkrI GCNGC 3 cut(s) 182, 201, 948
PleI GAGTC 3 cut(s) 395, 719, 1168
PpsI GAGTC 3 cut(s) 395, 719, 1168
Ppu21I YACGTR 2 cut(s) 858, 1273
Psp124BI GAGCTC 1 cut(s) 1040
Psp6I CCWGG 3 cut(s) 1057, 1347, 1366
PspFI CCCAGC 1 cut(s) 1103
PspGI CCWGG 3 cut(s) 1057, 1347, 1366
PspPI GGNCC 1 cut(s) 1359
PstNI CAGNNNCTG 1 cut(s) 1439
PsuI RGATCY 1 cut(s) 1087
PvuII CAGCTG 1 cut(s) 199
RsaI GTAC 3 cut(s) 788, 888, 1275
RsaNI GTAC 3 cut(s) 787, 887, 1274
RseI CAYNNNNRTG 2 cut(s) 441, 693
SacI GAGCTC 1 cut(s) 1040
SalI GTCGAC 1 cut(s) 4
SapI GCTCTTC 1 cut(s) 209
SaqAI TTAA 2 cut(s) 1065, 1341
SatI GCNGC 3 cut(s) 181, 200, 947
Sau3AI GATC 5 cut(s) 252, 567, 1087, 1156, 1393
Sau96I GGNCC 1 cut(s) 1359
SchI GAGTC 3 cut(s) 396, 720, 1168
ScrFI CCNGG 3 cut(s) 1059, 1349, 1368
SduI GDGCHC 4 cut(s) 372, 688, 817, 1040
SfaNI GCATC 3 cut(s) 53, 838, 1297
Sfr274I CTCGAG 1 cut(s) 1112
SfuI TTCGAA 1 cut(s) 29
SinI GGWCC 1 cut(s) 1359
SlaI CTCGAG 1 cut(s) 1112
SmiMI CAYNNNNRTG 2 cut(s) 441, 693
SmlI CTYRAG 3 cut(s) 371, 582, 1112
SmoI CTYRAG 3 cut(s) 371, 582, 1112
SnaBI TACGTA 1 cut(s) 1273
Sse9I AATT 9 cut(s) 244, 469, 559, 952, 1062, 1334, 1406, 1457, 1476
SsiI CCGC 5 cut(s) 327, 587, 844, 897, 1171
SstI GAGCTC 1 cut(s) 1040
StyD4I CCNGG 3 cut(s) 1057, 1347, 1366
StyI CCWWGG 2 cut(s) 436, 994
TaaI ACNGT 1 cut(s) 116
TaiI ACGT 6 cut(s) 105, 353, 456, 860, 1209, 1275
TaqI TCGA 6 cut(s) 5, 29, 525, 1099, 1113, 1453
TasI AATT 9 cut(s) 244, 469, 559, 952, 1062, 1334, 1406, 1457, 1476
TatI WGTACW 1 cut(s) 886
TfiI GAWTC 2 cut(s) 1195, 1234
Tru1I TTAA 2 cut(s) 1065, 1341
Tru9I TTAA 2 cut(s) 1065, 1341
TscAI CASTG 1 cut(s) 499
TseFI GTSAC 4 cut(s) 712, 800, 989, 1425
TseI GCWGC 3 cut(s) 180, 199, 946
Tsp45I GTSAC 4 cut(s) 712, 800, 989, 1425
TspDTI ATGAA 5 cut(s) 407, 491, 738, 1115, 1187
TspGWI ACGGA 3 cut(s) 160, 529, 1232
TspRI CASTG 1 cut(s) 499
VpaK11BI GGWCC 1 cut(s) 1359
XapI RAATTY 4 cut(s) 244, 559, 952, 1406
XceI RCATGY 2 cut(s) 313, 1148
XhoI CTCGAG 1 cut(s) 1112
XmiI GTMKAC 1 cut(s) 5
Zsp2I ATGCAT 1 cut(s) 723
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.