RchiOBHm_Chr1g0319391

PPR repeat

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0007852
Physical Location & Seq
Forward (+)
6972282 .. 6975787
3506 bp
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UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1635 bp
ATGGAGTCTCAGGGGAAACCTCCCACCGAGAAACAGTTTGAGATTCTGATCAGAATGCACTCTGATGCCAATAGAGGTCTCAGGGTTTATCATGTCTATGAGAAGATGAAGAAGTTTGGGGTTAAACCCAGGGTTTATTTGTACAATAGGGTAATGGATGCATTGGTCAAAACGGGTCATTTGGATTTGGCATTGTCGGTTTACGGAGATTTTCGGGGTGATGGGTTGGTGGAGGAGAGTGTGACTTTTATGATTCTGATAAAGGGGATGTGTAAATGTGGGAGAGTTGATGAAATGTTGGGACTTTTGGATAGAATGAGGGTGAGTTTGTGTAAGCCGGACGTGTTTGCTTACACCGCAATGATAAAGGTGATGGTTTCGGAGGGTGATTTGGATGGTTGTTTGAAGGTTTGGGAGGAAATGAGGAGGGATAGAGTTGAGGCGGATGCTATGGCGTATGTGACTCTGGTTACCGGGTTGTGTAAAGGAGGGAGGGTGGAGAAGGGGTATGAGTTGTTTAGGGAGATGAAGGAGAAGGGTTTTTTGATTGATAGAGCGATTTATGGGGTGCTGGTTGAGGGGTTTGTGGAAGACAGGATGGTTGGGGCAGCGTGTGATTTGTTGAAGGATTTGGTGGGATCAGGGTATAGAGCAGATTTGGGGATATATAATTCTCTGATCAAGGGTTTATGTGATGTTAAACGGGTTGATAAGGCTTATAAGCTTTTCCGAGTTGCAGTTCAAGAGGGTCTTGGGCCGGATTTTGCGACGGTGAATCCCATTCTGGTGTCTTATGCTGAGATGAGAAAAATGGATAACTTTTGCGAGTTGCTTGCACAGATGGAGAAATGCGGTTGTCCTGTTATTGATGATCTTTTGAAATTCTTTTCCATTGTTGCTGAAAAGGAGGATGGAGTCATGATGGCTTTGGAAGTGTTTGAAGACTTGAAAGTTAAAAATTATTCTAGTGTTGCGATCTATAATATCCTTATTGCCAGCCTCCACAAATTTGGGAAAGTGAAGAAGGCATTATCCCTCTTTGATGAGATGAAGAGTTTTGATTTCCAGCCGGACTCGTCCACTTATAGCTCTGCGATTATGTGTTATATTGAAGAAGGGGATCTCCATGAAGCTTGTGCCTGTCATAATAAGATAATTGAAATGTCTTGTGTTCCTTCTATTGCTGCCTATCGCTCTCTTGCTAAAGGGCTTTTCAATGTTGGAGAGATTGATGCAGTTATGCTGCTAGTCCGGGACTGCTTAGCCAGTGTGACAAGTGGGCCCATGACATTCAAGTATTCTCTTACCATTCTCCATGCGTGTAGATCCAATAATGCTGAGAAGGTGATTGATGTACTGAATGAGATGATGCAGCAGGGTTGTCCACCAGATCATGTTATATACTCTGCTATAATCTCTGGCATGTGTAAGCATGGCACAATAGAGGAGGCAAGGAAGGTATTTTCAAATTTGAAAGAGCGCAAACTTATAACAGAAGCCAACATGATTGTGTATGATGATATATTAATTGAACACATGAAGAAGAAGACAGCAGATCTGGTAGTGTCAGGGTTGAAGTTTTTTGGTTTAGAATCCAAGCTGAAAGCAAAGGGTTGTAAACTGCTGTCAGGTTGA

Protein Analysis

544

Amino Acids

60.98

Weight (kDa)

6.59

Isoelectric Point (pI)

29.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_long PF17177 1 - 112 2e-07 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 80 - 124 7.2e-11 PPR repeat family
PPR_1 PF12854 80 - 107 1.9e-06 PPR repeat
PPR_2 PF13041 113 - 162 3.6e-11 PPR repeat family
PPR_1 PF12854 146 - 177 4.9e-07 PPR repeat
PPR_2 PF13041 149 - 196 1.2e-07 PPR repeat family
PPR PF01535 152 - 181 3e-07 PPR repeat
PPR_1 PF12854 215 - 244 7.8e-07 PPR repeat
PPR_2 PF13041 221 - 258 3.8e-06 PPR repeat family
PPR_2 PF13041 323 - 365 2.6e-11 PPR repeat family
PPR PF01535 326 - 354 2.2e-06 PPR repeat
PPR_1 PF12854 460 - 489 4.1e-09 PPR repeat
PPR_2 PF13041 463 - 495 3e-06 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)
AanI TTATAA 2 cut(s) 720, 1490
AciI CCGC 3 cut(s) 357, 443, 852
AclWI GGATC 3 cut(s) 646, 1128, 1320
AcsI RAATTY 3 cut(s) 881, 1007, 1468
AfaI GTAC 2 cut(s) 143, 1356
AflIII ACRYGT 1 cut(s) 342
AjiI CACGTC 1 cut(s) 343
AjnI CCWGG 1 cut(s) 128
AluBI AGCT 4 cut(s) 724, 1089, 1133, 1600
AluI AGCT 4 cut(s) 724, 1089, 1133, 1600
Alw26I GTCTC 2 cut(s) 12, 83
AlwI GGATC 3 cut(s) 646, 1128, 1320
AoxI GGCC 2 cut(s) 755, 1280
ApaI GGGCCC 1 cut(s) 1284
ApeKI GCWGC 4 cut(s) 608, 1184, 1243, 1372
ApoI RAATTY 3 cut(s) 881, 1007, 1468
AseI ATTAAT 1 cut(s) 1526
AspLEI GCGC 1 cut(s) 1482
AspS9I GGNCC 3 cut(s) 755, 1280, 1281
AsuC2I CCSGG 2 cut(s) 475, 1253
AsuHPI GGTGA 6 cut(s) 230, 334, 382, 398, 784, 1357
BaeGI GKGCMC 1 cut(s) 1284
BanII GRGCYC 1 cut(s) 1284
BbsI GAAGAC 3 cut(s) 597, 948, 1553
BbvI GCAGC 4 cut(s) 620, 1171, 1230, 1384
BccI CCATC 7 cut(s) 215, 367, 389, 592, 835, 905, 916
BcgI CGANNNNNNTGC 2 cut(s) 815, 849
BciT130I CCWGG 1 cut(s) 130
BclI TGATCA 2 cut(s) 48, 678
BcnI CCSGG 2 cut(s) 475, 1253
BcoDI GTCTC 2 cut(s) 12, 83
BfaI CTAG 2 cut(s) 966, 1247
BglII AGATCT 1 cut(s) 1555
BisI GCNGC 4 cut(s) 609, 1185, 1244, 1373
BlpI GCTNAGC 1 cut(s) 1261
BlsI GCNGC 4 cut(s) 610, 1186, 1245, 1374
Bme1390I CCNGG 3 cut(s) 130, 475, 1253
BmgBI CACGTC 1 cut(s) 343
BmgT120I GGNCC 3 cut(s) 755, 1280, 1281
BmiI GGNNCC 1 cut(s) 1282
BmrFI CCNGG 3 cut(s) 130, 475, 1253
BmsI GCATC 5 cut(s) 55, 148, 436, 1222, 1359
BpiI GAAGAC 3 cut(s) 597, 948, 1553
Bpu1102I GCTNAGC 1 cut(s) 1261
BpuMI CCSGG 2 cut(s) 475, 1253
BsaBI GATNNNNATC 1 cut(s) 47
BsaI GGTCTC 1 cut(s) 83
BsaJI CCNNGG 2 cut(s) 128, 129
BsaXI ACNNNNNCTCC 4 cut(s) 480, 491, 510, 521
Bse1I ACTGG 1 cut(s) 1266
Bse3DI GCAATG 1 cut(s) 366
Bse8I GATNNNNATC 1 cut(s) 47
BseBI CCWGG 1 cut(s) 130
BseDI CCNNGG 2 cut(s) 128, 129
BseGI GGATG 6 cut(s) 163, 273, 400, 451, 603, 916
BseJI GATNNNNATC 1 cut(s) 47
BseMI GCAATG 1 cut(s) 366
BseMII CTCAG 4 cut(s) 23, 94, 789, 1329
BseNI ACTGG 1 cut(s) 1266
BseRI GAGGAG 3 cut(s) 248, 439, 1460
BseSI GKGCMC 1 cut(s) 1284
BseXI GCAGC 4 cut(s) 620, 1171, 1230, 1384
BshFI GGCC 2 cut(s) 757, 1282
BsiSI CCGG 5 cut(s) 338, 474, 758, 1070, 1252
BslFI GGGAC 2 cut(s) 315, 1268
BsmAI GTCTC 2 cut(s) 12, 83
BsmFI GGGAC 2 cut(s) 315, 1268
BsmI GAATGC 1 cut(s) 60
BsnI GGCC 2 cut(s) 757, 1282
Bso31I GGTCTC 1 cut(s) 83
Bsp120I GGGCCC 1 cut(s) 1280
Bsp1286I GDGCHC 1 cut(s) 1284
Bsp1407I TGTACA 1 cut(s) 141
Bsp143I GATC 9 cut(s) 48, 638, 678, 871, 975, 1120, 1325, 1390, 1555
Bsp1720I GCTNAGC 1 cut(s) 1261
BspACI CCGC 3 cut(s) 357, 443, 852
BspANI GGCC 2 cut(s) 757, 1282
BspCNI CTCAG 4 cut(s) 22, 93, 790, 1330
BspHI TCATGA 1 cut(s) 918
BspLI GGNNCC 1 cut(s) 1282
BspPI GGATC 3 cut(s) 646, 1128, 1320
BspTNI GGTCTC 1 cut(s) 83
BsrDI GCAATG 1 cut(s) 366
BsrGI TGTACA 1 cut(s) 141
BsrI ACTGG 1 cut(s) 1266
BssECI CCNNGG 2 cut(s) 128, 129
BssMI GATC 9 cut(s) 48, 638, 678, 871, 975, 1120, 1325, 1390, 1555
Bst2UI CCWGG 1 cut(s) 130
Bst4CI ACNGT 2 cut(s) 36, 772
Bst6I CTCTTC 1 cut(s) 1046
BstAUI TGTACA 1 cut(s) 141
BstC8I GCNNGC 2 cut(s) 834, 997
BstDEI CTNAG 5 cut(s) 9, 80, 798, 1261, 1338
BstEII GGTNACC 1 cut(s) 469
BstF5I GGATG 6 cut(s) 163, 273, 400, 451, 603, 916
BstHHI GCGC 1 cut(s) 1482
BstKTI GATC 9 cut(s) 51, 641, 681, 874, 978, 1123, 1328, 1393, 1558
BstMAI GTCTC 2 cut(s) 12, 83
BstMBI GATC 9 cut(s) 48, 638, 678, 871, 975, 1120, 1325, 1390, 1555
BstMWI GCNNNNNNNGC 1 cut(s) 356
BstNI CCWGG 1 cut(s) 130
BstNSI RCATGY 1 cut(s) 1426
BstPI GGTNACC 1 cut(s) 469
BstSCI CCNGG 3 cut(s) 128, 473, 1251
BstSLI GKGCMC 1 cut(s) 1284
BstV1I GCAGC 4 cut(s) 620, 1171, 1230, 1384
BstV2I GAAGAC 3 cut(s) 597, 948, 1553
BstX2I RGATCY 3 cut(s) 1120, 1325, 1555
BstXI CCANNNNNNTGG 1 cut(s) 1010
BstYI RGATCY 3 cut(s) 1120, 1325, 1555
BsuRI GGCC 2 cut(s) 757, 1282
BtrI CACGTC 1 cut(s) 343
BtsCI GGATG 6 cut(s) 163, 273, 400, 451, 603, 916
BtsIMutI CAGTG 1 cut(s) 1273
Cac8I GCNNGC 2 cut(s) 834, 997
CciI TCATGA 1 cut(s) 918
CfoI GCGC 1 cut(s) 1482
Cfr13I GGNCC 3 cut(s) 755, 1280, 1281
Csp6I GTAC 2 cut(s) 142, 1355
CviQI GTAC 2 cut(s) 142, 1355
DdeI CTNAG 5 cut(s) 9, 80, 798, 1261, 1338
DpnI GATC 9 cut(s) 50, 640, 680, 873, 977, 1122, 1327, 1392, 1557
DpnII GATC 9 cut(s) 48, 638, 678, 871, 975, 1120, 1325, 1390, 1555
Eam1104I CTCTTC 1 cut(s) 1046
EarI CTCTTC 1 cut(s) 1046
EciI GGCGGA 1 cut(s) 458
Eco24I GRGCYC 1 cut(s) 1284
Eco31I GGTCTC 1 cut(s) 83
Eco91I GGTNACC 1 cut(s) 469
EcoO65I GGTNACC 1 cut(s) 469
EcoRII CCWGG 1 cut(s) 128
EcoT22I ATGCAT 1 cut(s) 163
EcoT38I GRGCYC 1 cut(s) 1284
FalI AAGNNNNNCTT 2 cut(s) 735, 767
FaqI GGGAC 2 cut(s) 315, 1268
FbaI TGATCA 2 cut(s) 48, 678
Fnu4HI GCNGC 4 cut(s) 609, 1185, 1244, 1373
FokI GGATG 6 cut(s) 170, 280, 407, 458, 610, 923
FriOI GRGCYC 1 cut(s) 1284
Fsp4HI GCNGC 4 cut(s) 609, 1185, 1244, 1373
FspBI CTAG 2 cut(s) 966, 1247
GlaI GCGC 1 cut(s) 1481
GluI GCNGC 4 cut(s) 609, 1185, 1244, 1373
HaeIII GGCC 2 cut(s) 757, 1282
HapII CCGG 5 cut(s) 338, 474, 758, 1070, 1252
HhaI GCGC 1 cut(s) 1482
Hin6I GCGC 1 cut(s) 1480
HinP1I GCGC 1 cut(s) 1480
HindIII AAGCTT 2 cut(s) 722, 1131
HinfI GANTC 8 cut(s) 5, 43, 253, 463, 775, 915, 1073, 1592
HpaII CCGG 5 cut(s) 338, 474, 758, 1070, 1252
HphI GGTGA 6 cut(s) 230, 334, 382, 398, 784, 1357
Hpy166II GTNNAC 4 cut(s) 202, 1080, 1385, 1619
Hpy188I TCNGA 7 cut(s) 48, 53, 64, 258, 382, 678, 731
Hpy188III TCNNGA 2 cut(s) 743, 919
Hpy8I GTNNAC 4 cut(s) 202, 1080, 1385, 1619
Hpy99I CGWCG 1 cut(s) 772
HpyCH4III ACNGT 2 cut(s) 36, 772
HpyCH4IV ACGT 1 cut(s) 342
HpyCH4V TGCA 6 cut(s) 58, 161, 737, 836, 1235, 1372
HpyF10VI GCNNNNNNNGC 1 cut(s) 356
HpyF3I CTNAG 5 cut(s) 9, 80, 798, 1261, 1338
HpySE526I ACGT 1 cut(s) 342
HspAI GCGC 1 cut(s) 1480
Ksp22I TGATCA 2 cut(s) 48, 678
Kzo9I GATC 9 cut(s) 48, 638, 678, 871, 975, 1120, 1325, 1390, 1555
Lsp1109I GCAGC 4 cut(s) 620, 1171, 1230, 1384
LweI GCATC 5 cut(s) 55, 148, 436, 1222, 1359
MaeI CTAG 2 cut(s) 966, 1247
MaeII ACGT 1 cut(s) 342
MaeIII GTNAC 4 cut(s) 241, 460, 469, 1270
MalI GATC 9 cut(s) 50, 640, 680, 873, 977, 1122, 1327, 1392, 1557
MboI GATC 9 cut(s) 48, 638, 678, 871, 975, 1120, 1325, 1390, 1555
MflI RGATCY 3 cut(s) 1120, 1325, 1555
MhlI GDGCHC 1 cut(s) 1284
MluCI AATT 7 cut(s) 670, 881, 958, 1007, 1155, 1468, 1527
MlyI GAGTC 4 cut(s) 14, 457, 924, 1067
MmeI TCCRAC 1 cut(s) 1201
Mph1103I ATGCAT 1 cut(s) 163
MseI TTAA 4 cut(s) 123, 699, 954, 1526
MslI CAYNNNNRTG 5 cut(s) 63, 96, 359, 785, 1508
MspI CCGG 5 cut(s) 338, 474, 758, 1070, 1252
MspR9I CCNGG 3 cut(s) 130, 475, 1253
Mva1269I GAATGC 1 cut(s) 60
MvaI CCWGG 1 cut(s) 130
MwoI GCNNNNNNNGC 1 cut(s) 356
NciI CCSGG 2 cut(s) 475, 1253
NdeII GATC 9 cut(s) 48, 638, 678, 871, 975, 1120, 1325, 1390, 1555
NlaIV GGNNCC 1 cut(s) 1282
NmuCI GTSAC 3 cut(s) 241, 460, 1270
NsiI ATGCAT 1 cut(s) 163
NspI RCATGY 1 cut(s) 1426
PagI TCATGA 1 cut(s) 918
PasI CCCWGGG 1 cut(s) 129
PctI GAATGC 1 cut(s) 60
PfeI GAWTC 4 cut(s) 43, 253, 775, 1592
PfoI TCCNGGA 1 cut(s) 1251
PkrI GCNGC 4 cut(s) 610, 1186, 1245, 1374
PleI GAGTC 4 cut(s) 13, 457, 923, 1067
PpsI GAGTC 4 cut(s) 13, 457, 923, 1067
PshBI ATTAAT 1 cut(s) 1526
PsiI TTATAA 2 cut(s) 720, 1490
Psp6I CCWGG 1 cut(s) 128
PspEI GGTNACC 1 cut(s) 469
PspGI CCWGG 1 cut(s) 128
PspN4I GGNNCC 1 cut(s) 1282
PspOMI GGGCCC 1 cut(s) 1280
PspPI GGNCC 3 cut(s) 755, 1280, 1281
PsuI RGATCY 3 cut(s) 1120, 1325, 1555
RsaI GTAC 2 cut(s) 143, 1356
RsaNI GTAC 2 cut(s) 142, 1355
RseI CAYNNNNRTG 5 cut(s) 63, 96, 359, 785, 1508
SaqAI TTAA 4 cut(s) 123, 699, 954, 1526
SatI GCNGC 4 cut(s) 609, 1185, 1244, 1373
Sau3AI GATC 9 cut(s) 48, 638, 678, 871, 975, 1120, 1325, 1390, 1555
Sau96I GGNCC 3 cut(s) 755, 1280, 1281
SchI GAGTC 4 cut(s) 14, 457, 924, 1067
ScrFI CCNGG 3 cut(s) 130, 475, 1253
SduI GDGCHC 1 cut(s) 1284
SfaNI GCATC 5 cut(s) 55, 148, 436, 1222, 1359
SmiMI CAYNNNNRTG 5 cut(s) 63, 96, 359, 785, 1508
Sse9I AATT 7 cut(s) 670, 881, 958, 1007, 1155, 1468, 1527
SsiI CCGC 3 cut(s) 357, 443, 852
SspMI CTAG 2 cut(s) 966, 1247
StyD4I CCNGG 3 cut(s) 128, 473, 1251
TaaI ACNGT 2 cut(s) 36, 772
TaiI ACGT 1 cut(s) 345
TasI AATT 7 cut(s) 670, 881, 958, 1007, 1155, 1468, 1527
TatI WGTACW 2 cut(s) 141, 1354
TfiI GAWTC 4 cut(s) 43, 253, 775, 1592
Tru1I TTAA 4 cut(s) 123, 699, 954, 1526
Tru9I TTAA 4 cut(s) 123, 699, 954, 1526
TscAI CASTG 1 cut(s) 1273
TseFI GTSAC 3 cut(s) 241, 460, 1270
TseI GCWGC 4 cut(s) 608, 1184, 1243, 1372
Tsp45I GTSAC 3 cut(s) 241, 460, 1270
TspDTI ATGAA 6 cut(s) 122, 306, 542, 1064, 1143, 1553
TspGWI ACGGA 1 cut(s) 219
TspRI CASTG 1 cut(s) 1273
VspI ATTAAT 1 cut(s) 1526
XapI RAATTY 3 cut(s) 881, 1007, 1468
XceI RCATGY 1 cut(s) 1426
XspI CTAG 2 cut(s) 966, 1247
Zsp2I ATGCAT 1 cut(s) 163
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.