RchiOBHm_Chr5g0004781

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0003805
Physical Location & Seq
Reverse (-)
3141680 .. 3143376
1697 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ28601

Sequence Viewer

Length: 1416 bp
ATGCATTTGTCCCTTACAGTCCTTAAAACTGTTTCTTTATATTTTTTTTTGAAAAACTTAAAAACTGTTTCTTGTAATTGTTATCTTCAGCATATATTGTTTCAAATTAGGTTCAAATTGAGTAAATTAGTAAAAGGCATCGAGGCCCAAGACAGTAGTCCTTTAGCCCAAACCCAGTCCAAAATGTTTCTACTCCAAGGTCACACTCATTTTCTCTCACACTCTTTTAACGTTAAACCCAAAACCCCGGCCACCCCCCCTAAAACGATGTCGTTTTGTCGCCTCCTCCGCCGTGCATTTTCCACCGCCACCACCCAGCCCAAACCCACAACCGCCAAGAGCATCAGAGCCATCTCCGCTGACCTCGACAGAGAGCGCAACCTCAAACGCCTCGTCAAGAAGTTCAAAGAGTCCTCAGAGCTCTACCGCTTCCGAACCAAAACCCCCATTTACGAAGAGACCGTTCGCCGCCTCACCAACGCCAAGCGCTTCCGTGCGATCGAAGAAATCCTAGAGGACCAGAAGAAGTATCCGGATTTCTCCGACGAGGGTTTCGCCGTCCGAATCCTTTCTCTTTATGGAAAGGCCGGCATGTTTGAGAATGCCCAGAAGGTGTTCGACGAAATGCCTGAGAGAAACTGCGGCCGCACCGTGTTGTCTTTCAATGCCCTCCTGGGGTCCTGCGTGAACTCCAACAAGTTTGATATGGTTGAGAAGATTTTCGGGGAGGTACCGGAGAAGTTGTCGATTGAGCCGGATTTGGTGTCGTACAATACTGTGATCAAGGCATTTTGCAAGATGGGTTCGTTTGACTCTGCGGTTTCGGTGGTTGATGTGATGGAGAAGAAGGGTGTGAAGCCGGATGTAATCACGTTCAATACGATTTTGGATTGCTTGTATGGGAATAAGCGGTTTTTGGATGCTGAGAAGATATGGGGTCAAATGGTGGAGAAGAATGTCGTTCCTAATATTAGGAGCTACAATGCCAAATTGCTGGGGTTTGCTTTGGAGAAGAGGAGTGTAGAAGGGGCTCAGTTAGTTGAAGAGTTGAGGAATATTGGAGTGAAACCTGATGTGTTCACCTTCAATGCCTTGATTAAGGGCTTTGTGAATGAGGGGAACTTGGGTGAAGCTAAGCGGTGGTATGGTGAAATAGAGAAGAGTAGTTGTGCTCCGGATAAATGGACTTTCGAGACGCTTGTTTCCTTTGTTTGTGAGAAGGATGATGTTGAGTTTGCTTTTGAGCTGTGCAAGGACATTTTCCAAAGGCGCCGCCTTGTGAGTGCGGCACTGTTGCAGCCTGTGGTGGATGGACTAGTCAAGGCCTCCATGATTGAGGAGGCAAAGGAACTTGTCAAACTTGGGAACGCTAATAACTACAGACGTTTTAATCTGAAGCTGACTTCAGACAAATAG

Protein Analysis

471

Amino Acids

53.74

Weight (kDa)

9.33

Isoelectric Point (pI)

46.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_long PF17177 200 - 289 5.3e-06 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 247 - 298 4.8e-11 Pentatricopeptide repeat domain
PPR_1 PF12854 250 - 281 7.7e-10 PPR repeat
PPR_2 PF13041 252 - 299 1.2e-15 PPR repeat family
TPR_24 PF23276 252 - 307 4.9e-06 Fungal tetratrico peptide repeats
PPR PF01535 255 - 285 3e-07 PPR repeat
PPR_3 PF13812 275 - 329 4.7e-09 Pentatricopeptide repeat domain
PPR_2 PF13041 287 - 331 1.1e-09 PPR repeat family
PPR_3 PF13812 346 - 403 5.8e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 354 - 379 2.2e-06 PPR repeat
PPR_2 PF13041 357 - 405 6.4e-11 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)
Acc65I GGTACC 1 cut(s) 730
AccB1I GGYRCC 2 cut(s) 730, 1269
AccIII TCCGGA 2 cut(s) 532, 1174
AclI AACGTT 1 cut(s) 231
AcoI YGGCCR 2 cut(s) 249, 643
AcuI CTGAAG 3 cut(s) 71, 1389, 1415
AcyI GRCGYC 1 cut(s) 1270
AfaI GTAC 2 cut(s) 732, 770
AfeI AGCGCT 1 cut(s) 488
AfiI CCNNNNNNNGG 1 cut(s) 675
AgsI TTSAA 8 cut(s) 52, 104, 115, 406, 664, 877, 1043, 1087
AhlI ACTAGT 1 cut(s) 1315
AjnI CCWGG 1 cut(s) 672
AluBI AGCT 5 cut(s) 421, 978, 1133, 1246, 1399
AluI AGCT 5 cut(s) 421, 978, 1133, 1246, 1399
Alw21I GWGCWC 2 cut(s) 423, 1174
Alw26I GTCTC 2 cut(s) 452, 1187
Aor13HI TCCGGA 2 cut(s) 532, 1174
Aor51HI AGCGCT 1 cut(s) 488
AoxI GGCC 5 cut(s) 144, 249, 585, 643, 1323
ApeKI GCWGC 1 cut(s) 1297
ArsI GACNNNNNNTTYG 4 cut(s) 378, 410, 536, 568
Asp700I GAANNNNTTC 3 cut(s) 568, 614, 719
Asp718I GGTACC 1 cut(s) 730
AspLEI GCGC 3 cut(s) 378, 489, 1272
AspS9I GGNCC 3 cut(s) 145, 517, 678
AsuC2I CCSGG 1 cut(s) 248
AsuHPI GGTGA 4 cut(s) 466, 1072, 1139, 1160
AvaII GGWCC 2 cut(s) 517, 678
BanI GGYRCC 2 cut(s) 730, 1269
BanII GRGCYC 2 cut(s) 423, 1033
Bbv12I GWGCWC 2 cut(s) 423, 1174
BbvI GCAGC 1 cut(s) 1309
BccI CCATC 4 cut(s) 359, 793, 832, 1304
BceAI ACGGC 2 cut(s) 276, 542
BciT130I CCWGG 1 cut(s) 674
BciVI GTATCC 1 cut(s) 540
BclI TGATCA 1 cut(s) 780
BcnI CCSGG 1 cut(s) 248
BcoDI GTCTC 2 cut(s) 452, 1187
BcuI ACTAGT 1 cut(s) 1315
BfaI CTAG 2 cut(s) 512, 1316
BfmI CTRYAG 1 cut(s) 1378
BfoI RGCGCY 2 cut(s) 490, 1273
BfuI GTATCC 1 cut(s) 540
BisI GCNGC 6 cut(s) 469, 643, 646, 1273, 1287, 1298
BlpI GCTNAGC 1 cut(s) 1134
BlsI GCNGC 6 cut(s) 470, 644, 647, 1274, 1288, 1299
Bme1390I CCNGG 2 cut(s) 248, 674
Bme18I GGWCC 2 cut(s) 517, 678
BmgT120I GGNCC 3 cut(s) 145, 517, 678
BmiI GGNNCC 3 cut(s) 679, 732, 1271
BmrFI CCNGG 2 cut(s) 248, 674
BmrI ACTGGG 1 cut(s) 169
BmsI GCATC 3 cut(s) 147, 351, 910
BmuI ACTGGG 1 cut(s) 169
BoxI GACNNNNGTC 1 cut(s) 156
Bpu1102I GCTNAGC 1 cut(s) 1134
BpuMI CCSGG 1 cut(s) 248
BsaHI GRCGYC 1 cut(s) 1270
BsaI GGTCTC 1 cut(s) 452
BsaJI CCNNGG 3 cut(s) 196, 246, 673
BsaWI WCCGGW 3 cut(s) 532, 733, 1174
BsaXI ACNNNNNCTCC 2 cut(s) 728, 758
Bsc4I CCNNNNNNNGG 1 cut(s) 675
Bse118I RCCGGY 1 cut(s) 587
Bse1I ACTGG 1 cut(s) 175
BseAI TCCGGA 2 cut(s) 532, 1174
BseBI CCWGG 1 cut(s) 674
BseDI CCNNGG 3 cut(s) 196, 246, 673
BseGI GGATG 4 cut(s) 868, 925, 1228, 1315
BseLI CCNNNNNNNGG 1 cut(s) 675
BseMII CTCAG 4 cut(s) 429, 621, 915, 1046
BseNI ACTGG 1 cut(s) 175
BseRI GAGGAG 3 cut(s) 275, 1030, 1352
BseX3I CGGCCG 1 cut(s) 643
BseXI GCAGC 1 cut(s) 1309
BseYI CCCAGC 2 cut(s) 315, 994
Bsh1285I CGRYCG 2 cut(s) 501, 646
BshFI GGCC 5 cut(s) 146, 251, 587, 645, 1325
BshNI GGYRCC 2 cut(s) 730, 1269
BsiEI CGRYCG 2 cut(s) 501, 646
BsiHKAI GWGCWC 2 cut(s) 423, 1174
BsiSI CCGG 7 cut(s) 248, 533, 588, 734, 755, 860, 1175
BslI CCNNNNNNNGG 1 cut(s) 675
BsmAI GTCTC 2 cut(s) 452, 1187
BsmBI CGTCTC 1 cut(s) 1187
BsmI GAATGC 1 cut(s) 607
BsnI GGCC 5 cut(s) 146, 251, 587, 645, 1325
Bso31I GGTCTC 1 cut(s) 452
Bsp1286I GDGCHC 3 cut(s) 423, 1033, 1174
Bsp13I TCCGGA 2 cut(s) 532, 1174
Bsp143I GATC 2 cut(s) 498, 780
Bsp1720I GCTNAGC 1 cut(s) 1134
BspANI GGCC 5 cut(s) 146, 251, 587, 645, 1325
BspCNI CTCAG 4 cut(s) 428, 622, 916, 1045
BspEI TCCGGA 2 cut(s) 532, 1174
BspLI GGNNCC 3 cut(s) 679, 732, 1271
BspT107I GGYRCC 2 cut(s) 730, 1269
BspTNI GGTCTC 1 cut(s) 452
BsrFI RCCGGY 1 cut(s) 587
BsrI ACTGG 1 cut(s) 175
BssAI RCCGGY 1 cut(s) 587
BssECI CCNNGG 3 cut(s) 196, 246, 673
BssMI GATC 2 cut(s) 498, 780
BssNI GRCGYC 1 cut(s) 1270
BssT1I CCWWGG 1 cut(s) 196
Bst2UI CCWGG 1 cut(s) 674
Bst4CI ACNGT 8 cut(s) 19, 31, 67, 155, 463, 652, 778, 1293
Bst6I CTCTTC 4 cut(s) 450, 1007, 1038, 1154
BstACI GRCGYC 1 cut(s) 1270
BstC8I GCNNGC 1 cut(s) 589
BstDEI CTNAG 5 cut(s) 415, 630, 924, 1032, 1134
BstF5I GGATG 4 cut(s) 868, 925, 1228, 1315
BstH2I RGCGCY 2 cut(s) 490, 1273
BstHHI GCGC 3 cut(s) 378, 489, 1272
BstKTI GATC 2 cut(s) 501, 783
BstMAI GTCTC 2 cut(s) 452, 1187
BstMBI GATC 2 cut(s) 498, 780
BstMCI CGRYCG 2 cut(s) 501, 646
BstMWI GCNNNNNNNGC 2 cut(s) 288, 356
BstNI CCWGG 1 cut(s) 674
BstNSI RCATGY 1 cut(s) 595
BstPAI GACNNNNGTC 1 cut(s) 156
BstSCI CCNGG 2 cut(s) 246, 672
BstSFI CTRYAG 1 cut(s) 1378
BstV1I GCAGC 1 cut(s) 1309
BstXI CCANNNNNNTGG 1 cut(s) 994
BstZI CGGCCG 1 cut(s) 643
BsuI GTATCC 1 cut(s) 540
BsuRI GGCC 5 cut(s) 146, 251, 587, 645, 1325
BtsCI GGATG 4 cut(s) 868, 925, 1228, 1315
BtsIMutI CAGTG 1 cut(s) 1289
Cac8I GCNNGC 1 cut(s) 589
CciNI GCGGCCGC 1 cut(s) 643
CfoI GCGC 3 cut(s) 378, 489, 1272
Cfr10I RCCGGY 1 cut(s) 587
Cfr13I GGNCC 3 cut(s) 145, 517, 678
CseI GACGC 1 cut(s) 1204
Csp6I GTAC 2 cut(s) 731, 769
CviAII CATG 2 cut(s) 592, 1330
CviQI GTAC 2 cut(s) 731, 769
DdeI CTNAG 5 cut(s) 415, 630, 924, 1032, 1134
DinI GGCGCC 1 cut(s) 1271
DpnI GATC 2 cut(s) 500, 782
DpnII GATC 2 cut(s) 498, 780
EaeI YGGCCR 2 cut(s) 249, 643
EagI CGGCCG 1 cut(s) 643
Eam1104I CTCTTC 4 cut(s) 450, 1007, 1038, 1154
EarI CTCTTC 4 cut(s) 450, 1007, 1038, 1154
EciI GGCGGA 1 cut(s) 278
Ecl136II GAGCTC 1 cut(s) 421
EclXI CGGCCG 1 cut(s) 643
Eco130I CCWWGG 1 cut(s) 196
Eco147I AGGCCT 1 cut(s) 1325
Eco24I GRGCYC 2 cut(s) 423, 1033
Eco31I GGTCTC 1 cut(s) 452
Eco47I GGWCC 2 cut(s) 517, 678
Eco47III AGCGCT 1 cut(s) 488
Eco52I CGGCCG 1 cut(s) 643
Eco53kI GAGCTC 1 cut(s) 421
Eco57I CTGAAG 3 cut(s) 71, 1389, 1415
EcoICRI GAGCTC 1 cut(s) 421
EcoO109I RGGNCCY 1 cut(s) 678
EcoRII CCWGG 1 cut(s) 672
EcoT14I CCWWGG 1 cut(s) 196
EcoT22I ATGCAT 1 cut(s) 6
EcoT38I GRGCYC 2 cut(s) 423, 1033
EgeI GGCGCC 1 cut(s) 1271
EheI GGCGCC 1 cut(s) 1271
ErhI CCWWGG 1 cut(s) 196
Esp3I CGTCTC 1 cut(s) 1187
FaeI CATG 2 cut(s) 595, 1333
FatI CATG 2 cut(s) 591, 1329
FbaI TGATCA 1 cut(s) 780
Fnu4HI GCNGC 6 cut(s) 469, 643, 646, 1273, 1287, 1298
FokI GGATG 4 cut(s) 875, 932, 1235, 1322
FriOI GRGCYC 2 cut(s) 423, 1033
Fsp4HI GCNGC 6 cut(s) 469, 643, 646, 1273, 1287, 1298
FspBI CTAG 2 cut(s) 512, 1316
GlaI GCGC 3 cut(s) 377, 488, 1271
GluI GCNGC 6 cut(s) 469, 643, 646, 1273, 1287, 1298
GsaI CCCAGC 2 cut(s) 319, 998
HaeII RGCGCY 2 cut(s) 490, 1273
HaeIII GGCC 5 cut(s) 146, 251, 587, 645, 1325
HapII CCGG 7 cut(s) 248, 533, 588, 734, 755, 860, 1175
HgaI GACGC 1 cut(s) 1204
HhaI GCGC 3 cut(s) 378, 489, 1272
Hin1I GRCGYC 1 cut(s) 1270
Hin1II CATG 2 cut(s) 595, 1333
Hin6I GCGC 3 cut(s) 376, 487, 1270
HinP1I GCGC 3 cut(s) 376, 487, 1270
HinfI GANTC 3 cut(s) 410, 564, 812
HpaII CCGG 7 cut(s) 248, 533, 588, 734, 755, 860, 1175
HphI GGTGA 4 cut(s) 466, 1072, 1139, 1160
Hpy166II GTNNAC 2 cut(s) 688, 1080
Hpy188I TCNGA 7 cut(s) 347, 418, 434, 544, 563, 1395, 1408
Hpy188III TCNNGA 4 cut(s) 397, 533, 1175, 1192
Hpy8I GTNNAC 2 cut(s) 688, 1080
Hpy99I CGWCG 2 cut(s) 548, 623
HpyAV CCTTC 5 cut(s) 604, 841, 1019, 1093, 1213
HpyCH4III ACNGT 8 cut(s) 19, 31, 67, 155, 463, 652, 778, 1293
HpyCH4IV ACGT 3 cut(s) 231, 872, 1384
HpyCH4V TGCA 5 cut(s) 4, 296, 795, 1251, 1297
HpyF10VI GCNNNNNNNGC 2 cut(s) 288, 356
HpyF3I CTNAG 5 cut(s) 415, 630, 924, 1032, 1134
HpySE526I ACGT 3 cut(s) 231, 872, 1384
Hsp92I GRCGYC 1 cut(s) 1270
Hsp92II CATG 2 cut(s) 595, 1333
HspAI GCGC 3 cut(s) 376, 487, 1270
KasI GGCGCC 1 cut(s) 1269
Kpn2I TCCGGA 2 cut(s) 532, 1174
KpnI GGTACC 1 cut(s) 734
KroI GCCGGC 1 cut(s) 587
KroNI GCCGGC 1 cut(s) 589
Ksp22I TGATCA 1 cut(s) 780
Kzo9I GATC 2 cut(s) 498, 780
LmnI GCTCC 2 cut(s) 975, 1177
Lsp1109I GCAGC 1 cut(s) 1309
LweI GCATC 3 cut(s) 147, 351, 910
MaeI CTAG 2 cut(s) 512, 1316
MaeII ACGT 3 cut(s) 231, 872, 1384
MaeIII GTNAC 1 cut(s) 200
MalI GATC 2 cut(s) 500, 782
MboI GATC 2 cut(s) 498, 780
MhlI GDGCHC 3 cut(s) 423, 1033, 1174
MluCI AATT 5 cut(s) 76, 105, 116, 125, 989
Mly113I GGCGCC 1 cut(s) 1270
MlyI GAGTC 2 cut(s) 419, 806
MmeI TCCRAC 2 cut(s) 567, 717
Mph1103I ATGCAT 1 cut(s) 6
MroI TCCGGA 2 cut(s) 532, 1174
MroNI GCCGGC 1 cut(s) 587
MroXI GAANNNNTTC 3 cut(s) 568, 614, 719
MseI TTAA 6 cut(s) 24, 59, 228, 234, 1098, 1389
MspA1I CMGCKG 1 cut(s) 359
MspI CCGG 7 cut(s) 248, 533, 588, 734, 755, 860, 1175
MspR9I CCNGG 2 cut(s) 248, 674
Mva1269I GAATGC 1 cut(s) 607
MvaI CCWGG 1 cut(s) 674
MwoI GCNNNNNNNGC 2 cut(s) 288, 356
NaeI GCCGGC 1 cut(s) 589
NarI GGCGCC 1 cut(s) 1270
NciI CCSGG 1 cut(s) 248
NdeII GATC 2 cut(s) 498, 780
NgoMIV GCCGGC 1 cut(s) 587
NlaIII CATG 2 cut(s) 595, 1333
NlaIV GGNNCC 3 cut(s) 679, 732, 1271
NmuCI GTSAC 1 cut(s) 200
NotI GCGGCCGC 1 cut(s) 643
NsiI ATGCAT 1 cut(s) 6
NspI RCATGY 1 cut(s) 595
PceI AGGCCT 1 cut(s) 1325
PcsI WCGNNNNNNNCGW 2 cut(s) 459, 878
PctI GAATGC 1 cut(s) 607
PdiI GCCGGC 1 cut(s) 589
PdmI GAANNNNTTC 3 cut(s) 568, 614, 719
PfeI GAWTC 1 cut(s) 564
PkrI GCNGC 6 cut(s) 470, 644, 647, 1274, 1288, 1299
Ple19I CGATCG 1 cut(s) 501
PleI GAGTC 2 cut(s) 418, 806
PluTI GGCGCC 1 cut(s) 1273
PpsI GAGTC 2 cut(s) 418, 806
PpuMI RGGWCCY 1 cut(s) 678
PshAI GACNNNNGTC 1 cut(s) 156
Psp124BI GAGCTC 1 cut(s) 423
Psp1406I AACGTT 1 cut(s) 231
Psp5II RGGWCCY 1 cut(s) 678
Psp6I CCWGG 1 cut(s) 672
PspFI CCCAGC 2 cut(s) 315, 994
PspGI CCWGG 1 cut(s) 672
PspN4I GGNNCC 3 cut(s) 679, 732, 1271
PspPI GGNCC 3 cut(s) 145, 517, 678
PspPPI RGGWCCY 1 cut(s) 678
PvuI CGATCG 1 cut(s) 501
RsaI GTAC 2 cut(s) 732, 770
RsaNI GTAC 2 cut(s) 731, 769
SacI GAGCTC 1 cut(s) 423
SaqAI TTAA 6 cut(s) 24, 59, 228, 234, 1098, 1389
SatI GCNGC 6 cut(s) 469, 643, 646, 1273, 1287, 1298
Sau3AI GATC 2 cut(s) 498, 780
Sau96I GGNCC 3 cut(s) 145, 517, 678
SchI GAGTC 2 cut(s) 419, 806
ScrFI CCNGG 2 cut(s) 248, 674
SduI GDGCHC 3 cut(s) 423, 1033, 1174
SfaNI GCATC 3 cut(s) 147, 351, 910
SfcI CTRYAG 1 cut(s) 1378
SfoI GGCGCC 1 cut(s) 1271
SinI GGWCC 2 cut(s) 517, 678
SpeI ACTAGT 1 cut(s) 1315
Sse9I AATT 5 cut(s) 76, 105, 116, 125, 989
SseBI AGGCCT 1 cut(s) 1325
SspDI GGCGCC 1 cut(s) 1269
SspI AATATT 2 cut(s) 970, 1057
SspMI CTAG 2 cut(s) 512, 1316
SstI GAGCTC 1 cut(s) 423
StuI AGGCCT 1 cut(s) 1325
StyD4I CCNGG 2 cut(s) 246, 672
StyI CCWWGG 1 cut(s) 196
TaaI ACNGT 8 cut(s) 19, 31, 67, 155, 463, 652, 778, 1293
TaiI ACGT 3 cut(s) 234, 875, 1387
TaqI TCGA 6 cut(s) 141, 366, 501, 618, 746, 1191
TasI AATT 5 cut(s) 76, 105, 116, 125, 989
TauI GCSGC 5 cut(s) 471, 645, 648, 1275, 1289
TfiI GAWTC 1 cut(s) 564
Tru1I TTAA 6 cut(s) 24, 59, 228, 234, 1098, 1389
Tru9I TTAA 6 cut(s) 24, 59, 228, 234, 1098, 1389
TscAI CASTG 1 cut(s) 1296
TseFI GTSAC 1 cut(s) 200
TseI GCWGC 1 cut(s) 1297
Tsp45I GTSAC 1 cut(s) 200
TspGWI ACGGA 1 cut(s) 482
TspRI CASTG 1 cut(s) 1296
VpaK11BI GGWCC 2 cut(s) 517, 678
XceI RCATGY 1 cut(s) 595
XmnI GAANNNNTTC 3 cut(s) 568, 614, 719
XspI CTAG 2 cut(s) 512, 1316
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.