RchiOBHm_Chr3g0487401

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0006200
Physical Location & Seq
Reverse (-)
34610850 .. 34614556
3707 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ45183

Sequence Viewer

Length: 1509 bp
ATGAATCGTAGCCGTTGGATGATGTCGTCGGGAGCGGGGGAGCTGGTGAGGAAGCTCTGTACGGCGGTGGCGGCGGGGGGTCGGCGTGACAATCCGGATAGGCTGTACCGGAGGTTATCGGCTTTGGGAGGAAGCGGGAGGAGCGCGGCCACGGCCTTGAATGATTACATCATGGAGGGCAGAACGGTCAAGAAATATGAGCTCGAGCGCTGCATCAAGGAGCTCCGCAAGTACCGCCAGTACCAGAATGCTCTCGAGATAATGGAATGGATGGAGTTTAGGAAAATTCATTATGCTTTGCCTGACTATGCCGTACGGTTGGATCTTACGGCGAAAGCCAAAGGGATAGAGGCAGCTGAGAGTTACTTCAGCAATTTAGCACCGTCTGCGAAGAACAAATTGACTTACGGATCCCTTTTGAACTGTTATTGCAAGGAAGTGATGGAAGAGAAGGCATTGGCGCTTTATCAGAAGATGGATGAGTTGGACTGTGCCAACTCTACTCTGGTTTTTAACAATCTCATGTCTTTGTATATGAGAAAGGAGCGGCCGGAGAAAGTGGCGCCTTTCGTAGAGCAAATGAAGCAGAGGGAGATATCTTTAGATACGTTTAGTTACAATATCTGGATGCAGAGCTATGCCTCTTTGAATGATATTGAAGGCGTGGAGAGAGTTGTGGAAGAGATGCAAAGCCAAGATCAAGACAAATGCAACTGGTCAACATATAGTAATCTGGCTTCCATCTATGTAAAGGCGCAGCTTTTTGAGAAGGCTGAGCTAGCGCTTAAAATGTCGGAGAAAATGATGATACCGCTGAAGCAGCGCCAGACGTACCATTTCTTGATTACCCTCTATGCCAACACTGGTAATCTAGGTGAGGTCAAAAGAATATGGGAATCCCTCAAGTTAGCTTTCCCAGAAACCACCAATATGAGCTATATACTTGTGCTTCAAGCTCTATGTAAGCTAAAAGATGTTGAGGGTTTAAAAGAATGCTTTGAGGAGTGGCAGTCCAATTGCTCCAGTTATGATATGAGGTTAGCAAATGTAGTTATACGTGCTTATCTTAGTCAGGACATGCATGAAGAAGCGCTGTTGATCTTTAAGGATGCTACTAAGAGGTCTAAAGGGCCTTTCTTCAAGGCTCGAGAAATGTTCATGGTTTACTTCTTGGATGCCCGTCAGGTTGATTCAGCCATTAGCTATTTGGGAGAGGCGATTTCAGAAACCAAGGATGAGAATTGGCATCCGTCTCCAGAAATCATTGGTGCATTTTTTAAGTATTTTGAGGAAACAAAAGATGTTGATAGCTCTGAAAACTTTCATAAGATTCTGAAGCGTCTAAATTGTCTCAGTTCCAATGAGTATTCTTTGTTGCTTAAGGTTTATCTAGCAGCTGGTGAATTACTTCCTGAGATATGTCAGAGATTGAAGGAAGACAACATTCAAATAAGCCCCGAGCTTGAGGAATTGGTGGAGAGGGTTTCCCCAACTACATCGACAGCATAG

Protein Analysis

502

Amino Acids

58.05

Weight (kDa)

5.99

Isoelectric Point (pI)

53.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 168 - 214 2.9e-07 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)
AccB1I GGYRCC 1 cut(s) 562
AccBSI CCGCTC 2 cut(s) 35, 547
AccII CGCG 1 cut(s) 146
AccIII TCCGGA 1 cut(s) 94
AclWI GGATC 3 cut(s) 330, 405, 418
AcoI YGGCCR 2 cut(s) 147, 548
AcsI RAATTY 1 cut(s) 285
AcuI CTGAAG 3 cut(s) 352, 836, 1355
AcyI GRCGYC 1 cut(s) 563
AfaI GTAC 6 cut(s) 61, 107, 233, 242, 315, 833
AfeI AGCGCT 3 cut(s) 209, 783, 1092
AflII CTTAAG 1 cut(s) 1379
AgsI TTSAA 8 cut(s) 160, 421, 649, 659, 953, 1141, 1432, 1448
Alw21I GWGCWC 2 cut(s) 204, 225
Alw26I GTCTC 2 cut(s) 1257, 1355
AlwI GGATC 3 cut(s) 330, 405, 418
Ama87I CYCGRG 4 cut(s) 203, 254, 1146, 1457
Aor13HI TCCGGA 1 cut(s) 94
Aor51HI AGCGCT 3 cut(s) 209, 783, 1092
AoxI GGCC 4 cut(s) 147, 153, 548, 1130
ApeKI GCWGC 5 cut(s) 210, 353, 757, 820, 1394
ApoI RAATTY 1 cut(s) 285
Asp700I GAANNNNTTC 2 cut(s) 1320, 1407
AspLEI GCGC 8 cut(s) 146, 210, 463, 565, 757, 784, 825, 1093
AspS9I GGNCC 1 cut(s) 1130
AsuHPI GGTGA 3 cut(s) 58, 887, 1412
AsuNHI GCTAGC 1 cut(s) 778
AvaI CYCGRG 4 cut(s) 203, 254, 1146, 1457
BamHI GGATCC 1 cut(s) 410
BanI GGYRCC 1 cut(s) 562
BanII GRGCYC 2 cut(s) 204, 225
BarI GAAGNNNNNNTAC 2 cut(s) 721, 753
BbsI GAAGAC 1 cut(s) 1443
Bbv12I GWGCWC 2 cut(s) 204, 225
BbvI GCAGC 5 cut(s) 197, 365, 769, 832, 1406
BccI CCATC 4 cut(s) 265, 436, 469, 749
BceAI ACGGC 4 cut(s) 78, 168, 296, 345
BcoDI GTCTC 2 cut(s) 1257, 1355
BfaI CTAG 3 cut(s) 779, 872, 1391
BfoI RGCGCY 6 cut(s) 211, 464, 566, 785, 826, 1094
BfrI CTTAAG 1 cut(s) 1379
BisI GCNGC 8 cut(s) 72, 147, 211, 354, 548, 758, 821, 1395
BlpI GCTNAGC 1 cut(s) 774
BlsI GCNGC 8 cut(s) 73, 148, 212, 355, 549, 759, 822, 1396
BmeT110I CYCGRG 4 cut(s) 203, 254, 1146, 1457
BmgT120I GGNCC 1 cut(s) 1130
BmiI GGNNCC 2 cut(s) 412, 564
BmsI GCATC 6 cut(s) 222, 618, 675, 1099, 1165, 1255
BmtI GCTAGC 1 cut(s) 782
BpiI GAAGAC 1 cut(s) 1443
BpmI CTGGAG 2 cut(s) 1006, 1239
Bpu1102I GCTNAGC 1 cut(s) 774
BpuEI CTTGAG 2 cut(s) 887, 1484
BsaAI YACGTR 1 cut(s) 1058
BsaHI GRCGYC 1 cut(s) 563
BsaJI CCNNGG 2 cut(s) 150, 1230
BsaWI WCCGGW 2 cut(s) 94, 108
BsaXI ACNNNNNCTCC 2 cut(s) 995, 1025
Bse1I ACTGG 4 cut(s) 238, 719, 868, 1023
BseAI TCCGGA 1 cut(s) 94
BseDI CCNNGG 2 cut(s) 150, 1230
BseGI GGATG 8 cut(s) 24, 276, 484, 633, 1114, 1180, 1240, 1246
BseMII CTCAG 4 cut(s) 348, 765, 1366, 1404
BseNI ACTGG 4 cut(s) 238, 719, 868, 1023
BseRI GAGGAG 2 cut(s) 154, 1016
BseX3I CGGCCG 1 cut(s) 548
BseXI GCAGC 5 cut(s) 197, 365, 769, 832, 1406
Bsh1236I CGCG 1 cut(s) 146
Bsh1285I CGRYCG 1 cut(s) 551
BshFI GGCC 4 cut(s) 149, 155, 550, 1132
BshNI GGYRCC 1 cut(s) 562
BsiEI CGRYCG 1 cut(s) 551
BsiHKAI GWGCWC 2 cut(s) 204, 225
BsiHKCI CYCGRG 4 cut(s) 203, 254, 1146, 1457
BsiSI CCGG 3 cut(s) 95, 109, 551
BsiWI CGTACG 1 cut(s) 313
BsmAI GTCTC 2 cut(s) 1257, 1355
BsmBI CGTCTC 1 cut(s) 1257
BsmI GAATGC 2 cut(s) 253, 998
BsnI GGCC 4 cut(s) 149, 155, 550, 1132
BsoBI CYCGRG 4 cut(s) 203, 254, 1146, 1457
Bsp1286I GDGCHC 2 cut(s) 204, 225
Bsp13I TCCGGA 1 cut(s) 94
Bsp143I GATC 4 cut(s) 322, 410, 697, 1098
Bsp1720I GCTNAGC 1 cut(s) 774
BspANI GGCC 4 cut(s) 149, 155, 550, 1132
BspCNI CTCAG 4 cut(s) 349, 766, 1365, 1405
BspEI TCCGGA 1 cut(s) 94
BspFNI CGCG 1 cut(s) 146
BspLI GGNNCC 2 cut(s) 412, 564
BspOI GCTAGC 1 cut(s) 782
BspPI GGATC 3 cut(s) 330, 405, 418
BspT107I GGYRCC 1 cut(s) 562
BspTI CTTAAG 1 cut(s) 1379
BsrBI CCGCTC 2 cut(s) 35, 547
BsrI ACTGG 4 cut(s) 238, 719, 868, 1023
BssECI CCNNGG 2 cut(s) 150, 1230
BssMI GATC 4 cut(s) 322, 410, 697, 1098
BssNI GRCGYC 1 cut(s) 563
BssT1I CCWWGG 1 cut(s) 1230
Bst4CI ACNGT 5 cut(s) 187, 318, 384, 425, 491
Bst6I CTCTTC 2 cut(s) 441, 675
BstACI GRCGYC 1 cut(s) 563
BstAFI CTTAAG 1 cut(s) 1379
BstAPI GCANNNNNTGC 1 cut(s) 386
BstBAI YACGTR 1 cut(s) 1058
BstC8I GCNNGC 1 cut(s) 780
BstDEI CTNAG 6 cut(s) 357, 774, 1067, 1116, 1352, 1413
BstDSI CCRYGG 1 cut(s) 150
BstF5I GGATG 8 cut(s) 24, 276, 484, 633, 1114, 1180, 1240, 1246
BstFNI CGCG 1 cut(s) 146
BstH2I RGCGCY 6 cut(s) 211, 464, 566, 785, 826, 1094
BstHHI GCGC 8 cut(s) 146, 210, 463, 565, 757, 784, 825, 1093
BstKTI GATC 4 cut(s) 325, 413, 700, 1101
BstMAI GTCTC 2 cut(s) 1257, 1355
BstMBI GATC 4 cut(s) 322, 410, 697, 1098
BstMCI CGRYCG 1 cut(s) 551
BstMWI GCNNNNNNNGC 8 cut(s) 71, 141, 152, 234, 386, 583, 779, 820
BstNSI RCATGY 1 cut(s) 1081
BstUI CGCG 1 cut(s) 146
BstV1I GCAGC 5 cut(s) 197, 365, 769, 832, 1406
BstV2I GAAGAC 1 cut(s) 1443
BstX2I RGATCY 2 cut(s) 322, 410
BstYI RGATCY 2 cut(s) 322, 410
BstZI CGGCCG 1 cut(s) 548
BsuRI GGCC 4 cut(s) 149, 155, 550, 1132
BtgI CCRYGG 1 cut(s) 150
BtsCI GGATG 8 cut(s) 24, 276, 484, 633, 1114, 1180, 1240, 1246
BtsIMutI CAGTG 1 cut(s) 861
Cac8I GCNNGC 1 cut(s) 780
CfoI GCGC 8 cut(s) 146, 210, 463, 565, 757, 784, 825, 1093
Cfr13I GGNCC 1 cut(s) 1130
CseI GACGC 1 cut(s) 1328
Csp6I GTAC 6 cut(s) 60, 106, 232, 241, 314, 832
CviAII CATG 5 cut(s) 172, 523, 1078, 1082, 1159
CviQI GTAC 6 cut(s) 60, 106, 232, 241, 314, 832
DdeI CTNAG 6 cut(s) 357, 774, 1067, 1116, 1352, 1413
DinI GGCGCC 1 cut(s) 564
DpnI GATC 4 cut(s) 324, 412, 699, 1100
DpnII GATC 4 cut(s) 322, 410, 697, 1098
DraI TTTAAA 1 cut(s) 987
EaeI YGGCCR 2 cut(s) 147, 548
EagI CGGCCG 1 cut(s) 548
Eam1104I CTCTTC 2 cut(s) 441, 675
EarI CTCTTC 2 cut(s) 441, 675
Ecl136II GAGCTC 2 cut(s) 202, 223
EclXI CGGCCG 1 cut(s) 548
Eco130I CCWWGG 1 cut(s) 1230
Eco24I GRGCYC 2 cut(s) 204, 225
Eco32I GATATC 1 cut(s) 597
Eco47III AGCGCT 3 cut(s) 209, 783, 1092
Eco52I CGGCCG 1 cut(s) 548
Eco53kI GAGCTC 2 cut(s) 202, 223
Eco57I CTGAAG 3 cut(s) 352, 836, 1355
Eco88I CYCGRG 4 cut(s) 203, 254, 1146, 1457
EcoICRI GAGCTC 2 cut(s) 202, 223
EcoO109I RGGNCCY 1 cut(s) 1130
EcoRV GATATC 1 cut(s) 597
EcoT14I CCWWGG 1 cut(s) 1230
EcoT22I ATGCAT 1 cut(s) 1083
EcoT38I GRGCYC 2 cut(s) 204, 225
EgeI GGCGCC 1 cut(s) 564
EheI GGCGCC 1 cut(s) 564
ErhI CCWWGG 1 cut(s) 1230
Esp3I CGTCTC 1 cut(s) 1257
FaeI CATG 5 cut(s) 175, 526, 1081, 1085, 1162
FatI CATG 5 cut(s) 171, 522, 1077, 1081, 1158
FauI CCCGC 3 cut(s) 28, 67, 128
Fnu4HI GCNGC 8 cut(s) 72, 147, 211, 354, 548, 758, 821, 1395
FokI GGATG 8 cut(s) 31, 283, 491, 640, 1121, 1187, 1233, 1247
FriOI GRGCYC 2 cut(s) 204, 225
Fsp4HI GCNGC 8 cut(s) 72, 147, 211, 354, 548, 758, 821, 1395
FspBI CTAG 3 cut(s) 779, 872, 1391
GlaI GCGC 8 cut(s) 145, 209, 462, 564, 756, 783, 824, 1092
GluI GCNGC 8 cut(s) 72, 147, 211, 354, 548, 758, 821, 1395
GsuI CTGGAG 2 cut(s) 1006, 1239
HaeII RGCGCY 6 cut(s) 211, 464, 566, 785, 826, 1094
HaeIII GGCC 4 cut(s) 149, 155, 550, 1132
HapII CCGG 3 cut(s) 95, 109, 551
HgaI GACGC 1 cut(s) 1328
HhaI GCGC 8 cut(s) 146, 210, 463, 565, 757, 784, 825, 1093
Hin1I GRCGYC 1 cut(s) 563
Hin1II CATG 5 cut(s) 175, 526, 1081, 1085, 1162
Hin6I GCGC 8 cut(s) 144, 208, 461, 563, 755, 782, 823, 1091
HinP1I GCGC 8 cut(s) 144, 208, 461, 563, 755, 782, 823, 1091
HincII GTYRAC 1 cut(s) 720
HindII GTYRAC 1 cut(s) 720
HinfI GANTC 4 cut(s) 4, 896, 1190, 1330
HpaII CCGG 3 cut(s) 95, 109, 551
HphI GGTGA 3 cut(s) 58, 887, 1412
Hpy166II GTNNAC 2 cut(s) 720, 1165
Hpy188I TCNGA 6 cut(s) 471, 796, 1225, 1315, 1335, 1425
Hpy8I GTNNAC 2 cut(s) 720, 1165
Hpy99I CGWCG 1 cut(s) 31
HpyAV CCTTC 4 cut(s) 445, 653, 763, 1426
HpyCH4III ACNGT 5 cut(s) 187, 318, 384, 425, 491
HpyCH4IV ACGT 3 cut(s) 608, 830, 1057
HpyCH4V TGCA 7 cut(s) 213, 432, 631, 688, 711, 1081, 1271
HpyF10VI GCNNNNNNNGC 8 cut(s) 71, 141, 152, 234, 386, 583, 779, 820
HpyF3I CTNAG 6 cut(s) 357, 774, 1067, 1116, 1352, 1413
HpySE526I ACGT 3 cut(s) 608, 830, 1057
Hsp92I GRCGYC 1 cut(s) 563
Hsp92II CATG 5 cut(s) 175, 526, 1081, 1085, 1162
HspAI GCGC 8 cut(s) 144, 208, 461, 563, 755, 782, 823, 1091
KasI GGCGCC 1 cut(s) 562
Kpn2I TCCGGA 1 cut(s) 94
Kzo9I GATC 4 cut(s) 322, 410, 697, 1098
LmnI GCTCC 7 cut(s) 32, 40, 141, 220, 228, 544, 1025
Lsp1109I GCAGC 5 cut(s) 197, 365, 769, 832, 1406
LweI GCATC 6 cut(s) 222, 618, 675, 1099, 1165, 1255
MaeI CTAG 3 cut(s) 779, 872, 1391
MaeII ACGT 3 cut(s) 608, 830, 1057
MaeIII GTNAC 3 cut(s) 86, 362, 614
MalI GATC 4 cut(s) 324, 412, 699, 1100
MbiI CCGCTC 2 cut(s) 35, 547
MboI GATC 4 cut(s) 322, 410, 697, 1098
MboII GAAGA 7 cut(s) 403, 458, 484, 692, 1097, 1129, 1448
MfeI CAATTG 1 cut(s) 1015
MflI RGATCY 2 cut(s) 322, 410
MhlI GDGCHC 2 cut(s) 204, 225
MluCI AATT 8 cut(s) 285, 373, 398, 1015, 1240, 1345, 1403, 1469
Mly113I GGCGCC 1 cut(s) 563
MmeI TCCRAC 3 cut(s) 300, 465, 774
Mph1103I ATGCAT 1 cut(s) 1083
MroI TCCGGA 1 cut(s) 94
MroXI GAANNNNTTC 2 cut(s) 1320, 1407
MseI TTAA 6 cut(s) 513, 786, 986, 1104, 1278, 1380
MslI CAYNNNNRTG 1 cut(s) 929
MspA1I CMGCKG 3 cut(s) 356, 814, 1397
MspCI CTTAAG 1 cut(s) 1379
MspI CCGG 3 cut(s) 95, 109, 551
MunI CAATTG 1 cut(s) 1015
Mva1269I GAATGC 2 cut(s) 253, 998
MvnI CGCG 1 cut(s) 146
MwoI GCNNNNNNNGC 8 cut(s) 71, 141, 152, 234, 386, 583, 779, 820
NarI GGCGCC 1 cut(s) 563
NdeII GATC 4 cut(s) 322, 410, 697, 1098
NheI GCTAGC 1 cut(s) 778
NlaIII CATG 5 cut(s) 175, 526, 1081, 1085, 1162
NlaIV GGNNCC 2 cut(s) 412, 564
NmuCI GTSAC 1 cut(s) 86
NsiI ATGCAT 1 cut(s) 1083
NspI RCATGY 1 cut(s) 1081
PaeR7I CTCGAG 3 cut(s) 203, 254, 1146
PctI GAATGC 2 cut(s) 253, 998
PdmI GAANNNNTTC 2 cut(s) 1320, 1407
PfeI GAWTC 4 cut(s) 4, 896, 1190, 1330
Pfl23II CGTACG 1 cut(s) 313
PkrI GCNGC 8 cut(s) 73, 148, 212, 355, 549, 759, 822, 1396
PluTI GGCGCC 1 cut(s) 566
Ppu21I YACGTR 1 cut(s) 1058
Psp124BI GAGCTC 2 cut(s) 204, 225
PspLI CGTACG 1 cut(s) 313
PspN4I GGNNCC 2 cut(s) 412, 564
PspPI GGNCC 1 cut(s) 1130
PspXI VCTCGAGB 1 cut(s) 203
PsuI RGATCY 2 cut(s) 322, 410
PvuII CAGCTG 2 cut(s) 356, 1397
RsaI GTAC 6 cut(s) 61, 107, 233, 242, 315, 833
RsaNI GTAC 6 cut(s) 60, 106, 232, 241, 314, 832
RseI CAYNNNNRTG 1 cut(s) 929
SacI GAGCTC 2 cut(s) 204, 225
SaqAI TTAA 6 cut(s) 513, 786, 986, 1104, 1278, 1380
SatI GCNGC 8 cut(s) 72, 147, 211, 354, 548, 758, 821, 1395
Sau3AI GATC 4 cut(s) 322, 410, 697, 1098
Sau96I GGNCC 1 cut(s) 1130
SduI GDGCHC 2 cut(s) 204, 225
SfaNI GCATC 6 cut(s) 222, 618, 675, 1099, 1165, 1255
SfoI GGCGCC 1 cut(s) 564
Sfr274I CTCGAG 3 cut(s) 203, 254, 1146
SlaI CTCGAG 3 cut(s) 203, 254, 1146
SmiMI CAYNNNNRTG 1 cut(s) 929
SmlI CTYRAG 6 cut(s) 203, 254, 902, 1146, 1379, 1463
SmoI CTYRAG 6 cut(s) 203, 254, 902, 1146, 1379, 1463
Sse9I AATT 8 cut(s) 285, 373, 398, 1015, 1240, 1345, 1403, 1469
SspDI GGCGCC 1 cut(s) 562
SspMI CTAG 3 cut(s) 779, 872, 1391
SstI GAGCTC 2 cut(s) 204, 225
StyI CCWWGG 1 cut(s) 1230
TaaI ACNGT 5 cut(s) 187, 318, 384, 425, 491
TaiI ACGT 3 cut(s) 611, 833, 1060
TaqI TCGA 4 cut(s) 204, 255, 1147, 1499
TasI AATT 8 cut(s) 285, 373, 398, 1015, 1240, 1345, 1403, 1469
TauI GCSGC 3 cut(s) 74, 149, 550
TfiI GAWTC 4 cut(s) 4, 896, 1190, 1330
Tru1I TTAA 6 cut(s) 513, 786, 986, 1104, 1278, 1380
Tru9I TTAA 6 cut(s) 513, 786, 986, 1104, 1278, 1380
TscAI CASTG 1 cut(s) 868
TseFI GTSAC 1 cut(s) 86
TseI GCWGC 5 cut(s) 210, 353, 757, 820, 1394
Tsp45I GTSAC 1 cut(s) 86
TspDTI ATGAA 6 cut(s) 17, 278, 596, 1098, 1147, 1313
TspGWI ACGGA 2 cut(s) 423, 1239
TspRI CASTG 1 cut(s) 868
Vha464I CTTAAG 1 cut(s) 1379
XapI RAATTY 1 cut(s) 285
XceI RCATGY 1 cut(s) 1081
XcmI CCANNNNNNNNNTGG 2 cut(s) 502, 1204
XhoI CTCGAG 3 cut(s) 203, 254, 1146
XmnI GAANNNNTTC 2 cut(s) 1320, 1407
XspI CTAG 3 cut(s) 779, 872, 1391
Zsp2I ATGCAT 1 cut(s) 1083
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.