Rroxscaffold_4G00330460

Pentatricopeptide repeat-containing protein At3g46790

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0005788
Physical Location & Seq
Reverse (-)
64176460 .. 64180659
4200 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00330460.1

Sequence Viewer

Length: 1470 bp
ATGAATACAATTGGGGTTTCGTCTGATCGGTTTACGTATACGTATGTACTCAAAGCTTGTGTTGTTTCAGAGATTTTGAGTTCGCTCCTCCAGAAGGGAAAGGAGATTCATGGGCATATTTTGCGTCACGGATATGGGGCCCATGTTCATGTAATGACCACTTTGTTGGATATGTATGCAAGGTTCGGGTGCGTTTCATGTGCTAGTAGTGTATTTGATCAGATGCAAAATAGAAATGTGGTTTCTTGGAGTGCTATGATTGCTTGCTATGCAAAGAATGCAAGGCCTTATGAAGCTTTGGAACTTTTTCGGAGGATGATACTAGAGGCCCCTGATTTGTTTCCCAATTCCGTGACCATGGTTAGTGTTCTTCAAGCTTGTGCAGCTCTTGCTGCCTTGGAGCAGGGGAAGTTCATTCATGGGTACATCCTGAGAAGGGGTCTTGATTCAACCCTTCCGGTCATGAGTAGCCTTATCACAATGTATGCGAGATGTGGTAAGCTTGAGCTGGGCCAACAAGTTTTCAATTTGATAAAAAAGAAGGATGTGGTATCATGGAATTCCTTGATTTCAAGTTATGGAATTCATGGATATGGAAAGAGGGCAATTCAAATTTTTGAAGACATGATCAATCATGGAGTATCACCGAGTCATATTTCATTTGTTAGTGTTTTGGGGGCCTGTAGTCATGAAGGTCTTGTTGACGAGGGGAAGTTAATATTCCACTCTATGGTGAGAGATCATGGATTGTATCCCAGCATTGAGCAGTATGCTTGTATGGTGGATCTTCTTGGTCGTGCTAATCGGTTAGATGAAGCAGCCAAGGTCATTGAAGATATGCGGATTGAACCAGGAGCTCAAGTTTGGGGTGCTCTTCTTGGATCATGTAGGATACATGGTAATGTTGATCTGGCAGAGATAGCAAGCAAAAGGTTATTTGAGCTTGAGCCTAGGAATGCTGGGAATTATGTACTTCTAGCTGATATTTATGCTGAGGCCAAGATGTGGGATGAGGTAAAAAGAGTAAAGAAACTTCTAGAAGCTCGGGAACTTCAAAAGGTACCAGGTCGCAGTTGGATTGAAGTTAATAGGAAGATATACTCATTCGATTCTGTTGACGAGTTTAACCCACAAATGGAGCAACTTCATGCACTGCTGGGTGAATTGTCAATAGAGATGAAAGGACGAGGATATAAGCCACAGACTAAAGTTGTCCTCTATGATCTTGATGAGGAAGAGAAGGAACGTATAGTATTAGGCCATAGTGAAAAGTTAGCAGTTGCATTTGGTCTCATCAATACCAAAAATGGGGAAACCATTCGGATTTCCAAGAATTTGAGGCTATGTGAAGATTGCCATTATGTTACAAAGTTCATATCCAAGTTTACCAATAGAGAGATTCTAGTCCGAGATGTGAATCGGTTTCACCATTTCCATGACGGGGTTTGTTCATGCGGGGATTATTGGTAA

Protein Analysis

489

Amino Acids

55.28

Weight (kDa)

7.27

Isoelectric Point (pI)

45.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 78 - 128 5.9e-06 PPR repeat family
PPR PF01535 81 - 107 3e-06 PPR repeat
PPR_2 PF13041 181 - 229 5.5e-10 PPR repeat family
PPR PF01535 184 - 214 4.8e-07 PPR repeat
E_motif PF20431 299 - 361 6.5e-20 E motif
DYW_deaminase PF14432 397 - 489 1e-42 DYW family of nucleic acid deaminases
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 1060
AccB1I GGYRCC 1 cut(s) 1060
AccB7I CCANNNNNTGG 2 cut(s) 730, 1005
AccI GTMKAC 1 cut(s) 38
AciI CCGC 2 cut(s) 841, 1455
AclWI GGATC 2 cut(s) 792, 889
AcsI RAATTY 4 cut(s) 559, 582, 612, 1333
AfaI GTAC 4 cut(s) 48, 425, 972, 1062
AfiI CCNNNNNNNGG 7 cut(s) 94, 436, 730, 1005, 1135, 1308, 1441
AjnI CCWGG 2 cut(s) 850, 1063
Alw21I GWGCWC 2 cut(s) 859, 874
Alw26I GTCTC 1 cut(s) 1295
AlwI GGATC 2 cut(s) 792, 889
Ama87I CYCGRG 1 cut(s) 1044
AoxI GGCC 7 cut(s) 138, 284, 327, 511, 678, 996, 1258
ApaI GGGCCC 1 cut(s) 142
ApeKI GCWGC 3 cut(s) 383, 392, 818
ApoI RAATTY 4 cut(s) 559, 582, 612, 1333
Asp700I GAANNNNTTC 2 cut(s) 306, 1317
Asp718I GGTACC 1 cut(s) 1060
AspA2I CCTAGG 1 cut(s) 950
AspS9I GGNCC 5 cut(s) 138, 139, 328, 511, 678
AsuHPI GGTGA 4 cut(s) 636, 745, 1172, 1418
AvaI CYCGRG 1 cut(s) 1044
AvrII CCTAGG 1 cut(s) 950
BaeGI GKGCMC 1 cut(s) 142
BanI GGYRCC 1 cut(s) 1060
BanII GRGCYC 2 cut(s) 142, 859
BarI GAAGNNNNNNTAC 2 cut(s) 1017, 1049
BbsI GAAGAC 1 cut(s) 627
Bbv12I GWGCWC 2 cut(s) 859, 874
BbvCI CCTCAGC 1 cut(s) 993
BbvI GCAGC 3 cut(s) 379, 395, 830
BciT130I CCWGG 2 cut(s) 852, 1065
BciVI GTATCC 2 cut(s) 762, 885
BclI TGATCA 2 cut(s) 217, 627
BcoDI GTCTC 1 cut(s) 1295
BfaI CTAG 6 cut(s) 204, 323, 951, 977, 1037, 1403
BfmI CTRYAG 1 cut(s) 682
BfuI GTATCC 2 cut(s) 762, 885
BisI GCNGC 3 cut(s) 384, 393, 819
BlnI CCTAGG 1 cut(s) 950
BlsI GCNGC 3 cut(s) 385, 394, 820
Bme1390I CCNGG 2 cut(s) 852, 1065
BmeT110I CYCGRG 1 cut(s) 1044
BmgT120I GGNCC 5 cut(s) 138, 139, 328, 511, 678
BmiI GGNNCC 5 cut(s) 139, 140, 330, 679, 1062
BmrFI CCNGG 2 cut(s) 852, 1065
BmsI GCATC 1 cut(s) 213
BpiI GAAGAC 1 cut(s) 627
BpmI CTGGAG 1 cut(s) 74
Bpu10I CCTNAGC 1 cut(s) 993
BpuEI CTTGAG 3 cut(s) 524, 843, 965
BsaAI YACGTR 2 cut(s) 36, 42
BsaBI GATNNNNATC 1 cut(s) 1416
BsaI GGTCTC 1 cut(s) 1295
BsaJI CCNNGG 4 cut(s) 357, 396, 822, 950
BsaWI WCCGGW 1 cut(s) 457
BsaXI ACNNNNNCTCC 2 cut(s) 846, 876
Bsc4I CCNNNNNNNGG 7 cut(s) 94, 436, 730, 1005, 1135, 1308, 1441
Bse8I GATNNNNATC 1 cut(s) 1416
BseBI CCWGG 2 cut(s) 852, 1065
BseDI CCNNGG 4 cut(s) 357, 396, 822, 950
BseGI GGATG 4 cut(s) 321, 426, 550, 1015
BseJI GATNNNNATC 1 cut(s) 1416
BseLI CCNNNNNNNGG 7 cut(s) 94, 436, 730, 1005, 1135, 1308, 1441
BseMII CTCAG 2 cut(s) 422, 984
BseRI GAGGAG 1 cut(s) 77
BseSI GKGCMC 1 cut(s) 142
BseXI GCAGC 3 cut(s) 379, 395, 830
BseYI CCCAGC 4 cut(s) 508, 755, 959, 1156
BsgI GTGCAG 1 cut(s) 402
BshFI GGCC 7 cut(s) 140, 286, 329, 513, 680, 998, 1260
BshNI GGYRCC 1 cut(s) 1060
BsiHKAI GWGCWC 2 cut(s) 859, 874
BsiHKCI CYCGRG 1 cut(s) 1044
BsiSI CCGG 1 cut(s) 458
BslI CCNNNNNNNGG 7 cut(s) 94, 436, 730, 1005, 1135, 1308, 1441
BsmAI GTCTC 1 cut(s) 1295
BsmI GAATGC 2 cut(s) 283, 961
BsnI GGCC 7 cut(s) 140, 286, 329, 513, 680, 998, 1260
Bso31I GGTCTC 1 cut(s) 1295
BsoBI CYCGRG 1 cut(s) 1044
Bsp120I GGGCCC 1 cut(s) 138
Bsp1286I GDGCHC 3 cut(s) 142, 859, 874
Bsp143I GATC 8 cut(s) 25, 217, 627, 739, 784, 881, 907, 1222
Bsp19I CCATGG 1 cut(s) 357
BspACI CCGC 2 cut(s) 841, 1455
BspANI GGCC 7 cut(s) 140, 286, 329, 513, 680, 998, 1260
BspCNI CTCAG 2 cut(s) 423, 985
BspHI TCATGA 2 cut(s) 462, 688
BspLI GGNNCC 5 cut(s) 139, 140, 330, 679, 1062
BspPI GGATC 2 cut(s) 792, 889
BspQI GCTCTTC 1 cut(s) 879
BspT107I GGYRCC 1 cut(s) 1060
BspTNI GGTCTC 1 cut(s) 1295
BssECI CCNNGG 4 cut(s) 357, 396, 822, 950
BssMI GATC 8 cut(s) 25, 217, 627, 739, 784, 881, 907, 1222
BssNAI GTATAC 1 cut(s) 39
BssT1I CCWWGG 4 cut(s) 357, 396, 822, 950
Bst1107I GTATAC 1 cut(s) 39
Bst2UI CCWGG 2 cut(s) 852, 1065
Bst6I CTCTTC 2 cut(s) 879, 1230
BstAPI GCANNNNNTGC 3 cut(s) 121, 278, 389
BstBAI YACGTR 2 cut(s) 36, 42
BstC8I GCNNGC 2 cut(s) 265, 925
BstDEI CTNAG 2 cut(s) 431, 993
BstDSI CCRYGG 1 cut(s) 357
BstENI CCTNNNNNAGG 1 cut(s) 92
BstF5I GGATG 4 cut(s) 321, 426, 550, 1015
BstKTI GATC 8 cut(s) 28, 220, 630, 742, 787, 884, 910, 1225
BstMAI GTCTC 1 cut(s) 1295
BstMBI GATC 8 cut(s) 25, 217, 627, 739, 784, 881, 907, 1222
BstMWI GCNNNNNNNGC 8 cut(s) 121, 260, 269, 278, 383, 389, 392, 920
BstNI CCWGG 2 cut(s) 852, 1065
BstSCI CCNGG 2 cut(s) 850, 1063
BstSFI CTRYAG 1 cut(s) 682
BstSLI GKGCMC 1 cut(s) 142
BstSNI TACGTA 2 cut(s) 36, 42
BstV1I GCAGC 3 cut(s) 379, 395, 830
BstV2I GAAGAC 1 cut(s) 627
BstX2I RGATCY 1 cut(s) 784
BstXI CCANNNNNNTGG 1 cut(s) 166
BstYI RGATCY 1 cut(s) 784
BstZ17I GTATAC 1 cut(s) 39
BsuI GTATCC 2 cut(s) 762, 885
BsuRI GGCC 7 cut(s) 140, 286, 329, 513, 680, 998, 1260
BtgI CCRYGG 1 cut(s) 357
BtsCI GGATG 4 cut(s) 321, 426, 550, 1015
BtsI GCAGTG 1 cut(s) 1151
BtsIMutI CAGTG 1 cut(s) 1151
Cac8I GCNNGC 2 cut(s) 265, 925
CciI TCATGA 2 cut(s) 462, 688
Cfr13I GGNCC 5 cut(s) 138, 139, 328, 511, 678
CseI GACGC 1 cut(s) 113
CsiI ACCWGGT 1 cut(s) 1063
Csp6I GTAC 4 cut(s) 47, 424, 971, 1061
CviQI GTAC 4 cut(s) 47, 424, 971, 1061
DdeI CTNAG 2 cut(s) 431, 993
DpnI GATC 8 cut(s) 27, 219, 629, 741, 786, 883, 909, 1224
DpnII GATC 8 cut(s) 25, 217, 627, 739, 784, 881, 907, 1222
Eam1104I CTCTTC 2 cut(s) 879, 1230
EarI CTCTTC 2 cut(s) 879, 1230
Ecl136II GAGCTC 1 cut(s) 857
Eco105I TACGTA 2 cut(s) 36, 42
Eco130I CCWWGG 4 cut(s) 357, 396, 822, 950
Eco147I AGGCCT 1 cut(s) 286
Eco24I GRGCYC 2 cut(s) 142, 859
Eco31I GGTCTC 1 cut(s) 1295
Eco53kI GAGCTC 1 cut(s) 857
Eco88I CYCGRG 1 cut(s) 1044
EcoICRI GAGCTC 1 cut(s) 857
EcoNI CCTNNNNNAGG 1 cut(s) 92
EcoO109I RGGNCCY 3 cut(s) 138, 328, 678
EcoRI GAATTC 2 cut(s) 559, 582
EcoRII CCWGG 2 cut(s) 850, 1063
EcoT14I CCWWGG 4 cut(s) 357, 396, 822, 950
EcoT38I GRGCYC 2 cut(s) 142, 859
ErhI CCWWGG 4 cut(s) 357, 396, 822, 950
FauI CCCGC 1 cut(s) 1448
FbaI TGATCA 2 cut(s) 217, 627
FblI GTMKAC 1 cut(s) 38
Fnu4HI GCNGC 3 cut(s) 384, 393, 819
FokI GGATG 4 cut(s) 328, 413, 557, 1022
FriOI GRGCYC 2 cut(s) 142, 859
Fsp4HI GCNGC 3 cut(s) 384, 393, 819
FspBI CTAG 6 cut(s) 204, 323, 951, 977, 1037, 1403
GluI GCNGC 3 cut(s) 384, 393, 819
GsaI CCCAGC 4 cut(s) 512, 759, 963, 1160
GsuI CTGGAG 1 cut(s) 74
HaeIII GGCC 7 cut(s) 140, 286, 329, 513, 680, 998, 1260
HapII CCGG 1 cut(s) 458
HgaI GACGC 1 cut(s) 113
HincII GTYRAC 2 cut(s) 703, 1117
HindII GTYRAC 2 cut(s) 703, 1117
HindIII AAGCTT 4 cut(s) 54, 294, 375, 500
HinfI GANTC 6 cut(s) 106, 446, 649, 1109, 1399, 1417
HpaII CCGG 1 cut(s) 458
HphI GGTGA 4 cut(s) 636, 745, 1172, 1418
Hpy166II GTNNAC 5 cut(s) 33, 39, 703, 1117, 1386
Hpy188I TCNGA 6 cut(s) 25, 70, 222, 312, 1323, 1409
Hpy188III TCNNGA 8 cut(s) 91, 430, 443, 463, 689, 1037, 1046, 1226
Hpy8I GTNNAC 5 cut(s) 33, 39, 703, 1117, 1386
HpyAV CCTTC 6 cut(s) 88, 429, 464, 535, 686, 1234
HpyCH4IV ACGT 3 cut(s) 35, 41, 1246
HpyCH4V TGCA 7 cut(s) 179, 226, 272, 281, 383, 1151, 1283
HpyF10VI GCNNNNNNNGC 8 cut(s) 121, 260, 269, 278, 383, 389, 392, 920
HpyF3I CTNAG 2 cut(s) 431, 993
HpySE526I ACGT 3 cut(s) 35, 41, 1246
KpnI GGTACC 1 cut(s) 1064
Ksp22I TGATCA 2 cut(s) 217, 627
Kzo9I GATC 8 cut(s) 25, 217, 627, 739, 784, 881, 907, 1222
LguI GCTCTTC 1 cut(s) 879
LmnI GCTCC 4 cut(s) 90, 400, 854, 1138
Lsp1109I GCAGC 3 cut(s) 379, 395, 830
LweI GCATC 1 cut(s) 213
MabI ACCWGGT 1 cut(s) 1063
MaeI CTAG 6 cut(s) 204, 323, 951, 977, 1037, 1403
MaeII ACGT 3 cut(s) 35, 41, 1246
MaeIII GTNAC 3 cut(s) 125, 352, 1363
MalI GATC 8 cut(s) 27, 219, 629, 741, 786, 883, 909, 1224
MboI GATC 8 cut(s) 25, 217, 627, 739, 784, 881, 907, 1222
MboII GAAGA 8 cut(s) 362, 632, 779, 845, 866, 1105, 1247, 1361
MfeI CAATTG 1 cut(s) 9
MflI RGATCY 1 cut(s) 784
MhlI GDGCHC 3 cut(s) 142, 859, 874
MlyI GAGTC 1 cut(s) 658
MmeI TCCRAC 2 cut(s) 147, 1055
MroXI GAANNNNTTC 2 cut(s) 306, 1317
MseI TTAA 3 cut(s) 716, 1086, 1125
MslI CAYNNNNRTG 5 cut(s) 132, 147, 591, 900, 1434
MspI CCGG 1 cut(s) 458
MspR9I CCNGG 2 cut(s) 852, 1065
MunI CAATTG 1 cut(s) 9
Mva1269I GAATGC 2 cut(s) 283, 961
MvaI CCWGG 2 cut(s) 852, 1065
MwoI GCNNNNNNNGC 8 cut(s) 121, 260, 269, 278, 383, 389, 392, 920
NcoI CCATGG 1 cut(s) 357
NdeII GATC 8 cut(s) 25, 217, 627, 739, 784, 881, 907, 1222
NlaIV GGNNCC 5 cut(s) 139, 140, 330, 679, 1062
NmuCI GTSAC 2 cut(s) 125, 352
PagI TCATGA 2 cut(s) 462, 688
PceI AGGCCT 1 cut(s) 286
PciSI GCTCTTC 1 cut(s) 879
PctI GAATGC 2 cut(s) 283, 961
PdmI GAANNNNTTC 2 cut(s) 306, 1317
PfeI GAWTC 5 cut(s) 106, 446, 1109, 1399, 1417
PflMI CCANNNNNTGG 2 cut(s) 730, 1005
PkrI GCNGC 3 cut(s) 385, 394, 820
PleI GAGTC 1 cut(s) 657
PpsI GAGTC 1 cut(s) 657
Ppu21I YACGTR 2 cut(s) 36, 42
Psp124BI GAGCTC 1 cut(s) 859
Psp6I CCWGG 2 cut(s) 850, 1063
PspFI CCCAGC 4 cut(s) 508, 755, 959, 1156
PspGI CCWGG 2 cut(s) 850, 1063
PspN4I GGNNCC 5 cut(s) 139, 140, 330, 679, 1062
PspOMI GGGCCC 1 cut(s) 138
PspPI GGNCC 5 cut(s) 138, 139, 328, 511, 678
PsrI GAACNNNNNNTAC 2 cut(s) 167, 199
PsuI RGATCY 1 cut(s) 784
RsaI GTAC 4 cut(s) 48, 425, 972, 1062
RsaNI GTAC 4 cut(s) 47, 424, 971, 1061
RseI CAYNNNNRTG 5 cut(s) 132, 147, 591, 900, 1434
SacI GAGCTC 1 cut(s) 859
SapI GCTCTTC 1 cut(s) 879
SaqAI TTAA 3 cut(s) 716, 1086, 1125
SatI GCNGC 3 cut(s) 384, 393, 819
Sau3AI GATC 8 cut(s) 25, 217, 627, 739, 784, 881, 907, 1222
Sau96I GGNCC 5 cut(s) 138, 139, 328, 511, 678
SchI GAGTC 1 cut(s) 658
ScrFI CCNGG 2 cut(s) 852, 1065
SduI GDGCHC 3 cut(s) 142, 859, 874
SexAI ACCWGGT 1 cut(s) 1063
SfaNI GCATC 1 cut(s) 213
SfcI CTRYAG 1 cut(s) 682
SmiMI CAYNNNNRTG 5 cut(s) 132, 147, 591, 900, 1434
SmlI CTYRAG 3 cut(s) 503, 858, 944
SmoI CTYRAG 3 cut(s) 503, 858, 944
SnaBI TACGTA 2 cut(s) 36, 42
SseBI AGGCCT 1 cut(s) 286
SsiI CCGC 2 cut(s) 841, 1455
SspI AATATT 1 cut(s) 720
SspMI CTAG 6 cut(s) 204, 323, 951, 977, 1037, 1403
SstI GAGCTC 1 cut(s) 859
StuI AGGCCT 1 cut(s) 286
StyD4I CCNGG 2 cut(s) 850, 1063
StyI CCWWGG 4 cut(s) 357, 396, 822, 950
TaiI ACGT 3 cut(s) 38, 44, 1249
TaqI TCGA 1 cut(s) 1107
TatI WGTACW 2 cut(s) 46, 970
TfiI GAWTC 5 cut(s) 106, 446, 1109, 1399, 1417
Tru1I TTAA 3 cut(s) 716, 1086, 1125
Tru9I TTAA 3 cut(s) 716, 1086, 1125
TscAI CASTG 1 cut(s) 1158
TseFI GTSAC 2 cut(s) 125, 352
TseI GCWGC 3 cut(s) 383, 392, 818
Tsp45I GTSAC 2 cut(s) 125, 352
TspGWI ACGGA 2 cut(s) 144, 340
TspRI CASTG 1 cut(s) 1158
Van91I CCANNNNNTGG 2 cut(s) 730, 1005
XagI CCTNNNNNAGG 1 cut(s) 92
XapI RAATTY 4 cut(s) 559, 582, 612, 1333
XbaI TCTAGA 1 cut(s) 1036
XcmI CCANNNNNNNNNTGG 1 cut(s) 1071
XmaJI CCTAGG 1 cut(s) 950
XmiI GTMKAC 1 cut(s) 38
XmnI GAANNNNTTC 2 cut(s) 306, 1317
XspI CTAG 6 cut(s) 204, 323, 951, 977, 1037, 1403
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.