RLG00000005969

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr2
OG0005755
Physical Location & Seq
Forward (+)
3157702 .. 3160959
3258 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000005969

Sequence Viewer

Length: 1527 bp
ATGCCGATTTTCGGGTGCCGGCCCGATATTGTAACATACAATTGTTTGATTAATGGGTACTGTAAACTCTGTGATATTGATGAGGCTTGTTTAGTGATGAAGAGGATAAGGGTAGGAGGGTGTAGGCCTGATTTGGTTACTTTTAATACATTGTTTAGTGGGTTTTGTAAGGTTAAGATGAGGAAAGGTGTGTTTGTGTATATGGGTTTGATGTGGAAGTGTTTTGAACCGAATGTGATTAGTTATAGTACATTGATAGATATGCTTTGCAAGATGGGGGATTTGGATTTGGGATTTAGGGTTTATGGTTATATGGTGAAGGATAAGGTGTCGCCGAATTTGTTTGCTTTTACTTGTTTGATTGATGGGTATAGTAAGGCTGGTAATTTGGAGGTTGCGATTGAATTGCTTGAGGGAATGAAGAAATCGTTAGTTTTACCGAATGTGGTGACTTATGGTGCTTTGATTGATGGGCTGTGCAAGAATGGGAAGTTGGAAAGAGCTGAGCGTTTGTTTTGTGAGATGGTGGAAGATGGGGTTCGGCCTAGTTCAGCGGTTTACACTTCAATGATAGATGGGCATTTCAAGAAAGGAAATGTAGGTGAGGCCATGAAGTATATGAGTAAAATGCGGGATGGAAGGGTTAGTCTTGATGCTGCTGCATATGGAGTGGTGATCTCAGGCCTCTGTAATAATGGTCAGTTCGATAATGCGATGCGAGTTGTTACAGATTTTGCCATGAGTGGTTTTTCTCCAGATAAGATGTTGTTGACGACCATTATGGATGCATGTTTCAAAGCTGGCAATTTGAAAGCAGGTTTCGGTGTCTACAGATTGTTAGCAAAGGGTTTTGAACCAGATGCTGTGGTGCTTTCAGCTTTGATGGACGGCTTATGCAAGCATGGGCATTTGGAGGAGGCGAGAGGCTACTTTTGCAAGGAAAAGGCTAATGAAATTTCATATACTGTGATCATTGATGGGATGTGTAAGGAAGCAAACTTTAGTGAAGTTGAGATGATCTTCAGTGAGATGTCCGAGATGGGGTTTACTCCAGACAAATATGTATACACTTCTTGGATTGCTGGGCTATGCAGACAGGGTAATCTGGTCGAGGCTTTTAGACTCAAGAATAAAATGGTTAAAGAGGGCATCAGACCTGATCTGTTTACTTATAGCTCACTTATTTTTGGTTTAGCGAGTAAGGGACTCATGGTTGAAGCACAACAGGTTTTCGATGATATGTTGAAAAGAGGAATTACTCCTGACTGTCACGTCTTTGGTATTCTGATAAGAGGGTATTGTGATGAGGGTAATGATGTTGCCATTTTAGGTTTGCATGATGAAATGAGAAAGAGAGGGCTTGTAGTCACAGGAGCCGTCTTTCAAGAGGGGAACCAAGACTTTGATTTTCTGTCAGATTTGCAGGTGACTATTTTGAGCAACAAATTAACTGCAATCACAACAGTGAAGTGGGAGGAGTCTTGCAAGACCTCCAAATTAGAGTTTCCTGATGCAGACACATGTTAA

Protein Analysis

509

Amino Acids

56.49

Weight (kDa)

5.77

Isoelectric Point (pI)

25.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_1 PF12854 5 - 34 1.4e-09 PPR repeat
PPR_3 PF13812 5 - 53 3.9e-07 Pentatricopeptide repeat domain
PPR_2 PF13041 8 - 57 2.3e-16 PPR repeat family
PPR PF01535 11 - 41 5.4e-06 PPR repeat
PPR_1 PF12854 73 - 105 2e-08 PPR repeat
PPR_3 PF13812 75 - 122 9.4e-07 Pentatricopeptide repeat domain
PPR_2 PF13041 77 - 126 7e-13 PPR repeat family
PPR_long PF17177 89 - 168 1.4e-06 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 110 - 141 1.4e-07 PPR repeat
PPR_2 PF13041 112 - 161 4.8e-15 PPR repeat family
PPR_3 PF13812 113 - 157 2.9e-07 Pentatricopeptide repeat domain
PPR PF01535 116 - 142 8.5e-06 PPR repeat
PPR_1 PF12854 146 - 176 1.5e-13 PPR repeat
PPR_2 PF13041 147 - 193 7.1e-16 PPR repeat family
PPR PF01535 150 - 180 2.2e-10 PPR repeat
TPR_24 PF23276 151 - 241 5.8e-06 Fungal tetratrico peptide repeats
PPR_long PF17177 165 - 281 5.6e-07 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 182 - 231 1.7e-10 PPR repeat family
PPR_1 PF12854 282 - 307 6.9e-06 PPR repeat
PPR_2 PF13041 317 - 365 1.5e-11 PPR repeat family
PPR_3 PF13812 340 - 395 4.4e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 347 - 380 6.1e-08 PPR repeat
PPR PF01535 355 - 384 7.8e-06 PPR repeat
PPR_2 PF13041 355 - 399 7.5e-13 PPR repeat family
PPR_1 PF12854 383 - 414 7.7e-09 PPR repeat
PPR PF01535 389 - 419 1.4e-06 PPR repeat
PPR_2 PF13041 394 - 435 1.7e-09 PPR repeat family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 1414
AasI GACNNNNNNGTC 1 cut(s) 1271
Acc36I ACCTGC 2 cut(s) 806, 1414
AccB1I GGYRCC 1 cut(s) 15
AccI GTMKAC 2 cut(s) 828, 1065
AciI CCGC 2 cut(s) 554, 631
AcsI RAATTY 2 cut(s) 337, 954
AcuI CTGAAG 1 cut(s) 1006
AfaI GTAC 2 cut(s) 59, 250
AfiI CCNNNNNNNGG 2 cut(s) 11, 1041
AflIII ACRYGT 1 cut(s) 1520
AjiI CACGTC 1 cut(s) 1273
AjuI GAANNNNNNNTTGG 2 cut(s) 476, 508
AleI CACNNNNGTG 1 cut(s) 1463
AluBI AGCT 4 cut(s) 503, 800, 878, 1176
AluI AGCT 4 cut(s) 503, 800, 878, 1176
AlwNI CAGNNNCTG 1 cut(s) 863
AoxI GGCC 5 cut(s) 20, 125, 542, 606, 682
ApeKI GCWGC 2 cut(s) 656, 659
ApoI RAATTY 2 cut(s) 337, 954
AseI ATTAAT 1 cut(s) 51
AspS9I GGNCC 1 cut(s) 21
AsuHPI GGTGA 5 cut(s) 328, 460, 614, 685, 1438
BanI GGYRCC 1 cut(s) 15
BbvI GCAGC 2 cut(s) 643, 646
BceAI ACGGC 2 cut(s) 904, 1361
BcgI CGANNNNNNTGC 2 cut(s) 388, 422
BclI TGATCA 1 cut(s) 969
BfaI CTAG 1 cut(s) 546
BfmI CTRYAG 1 cut(s) 829
BfuAI ACCTGC 2 cut(s) 806, 1414
BisI GCNGC 2 cut(s) 657, 660
BlpI GCTNAGC 1 cut(s) 504
BlsI GCNGC 2 cut(s) 658, 661
BmgBI CACGTC 1 cut(s) 1273
BmgT120I GGNCC 1 cut(s) 21
BmiI GGNNCC 3 cut(s) 17, 1375, 1394
BmsI GCATC 6 cut(s) 643, 705, 775, 850, 1158, 1501
BpmI CTGGAG 2 cut(s) 738, 1035
Bpu1102I GCTNAGC 1 cut(s) 504
BpuEI CTTGAG 2 cut(s) 431, 1109
Bsc4I CCNNNNNNNGG 2 cut(s) 11, 1041
Bse118I RCCGGY 1 cut(s) 18
BseGI GGATG 3 cut(s) 640, 790, 987
BseLI CCNNNNNNNGG 2 cut(s) 11, 1041
BseMII CTCAG 2 cut(s) 495, 693
BseRI GAGGAG 2 cut(s) 929, 1490
BseXI GCAGC 2 cut(s) 643, 646
BseYI CCCAGC 1 cut(s) 1082
BshFI GGCC 5 cut(s) 22, 127, 544, 608, 684
BshNI GGYRCC 1 cut(s) 15
BsiSI CCGG 1 cut(s) 19
BslFI GGGAC 1 cut(s) 1218
BslI CCNNNNNNNGG 2 cut(s) 11, 1041
BsmFI GGGAC 1 cut(s) 1218
BsnI GGCC 5 cut(s) 22, 127, 544, 608, 684
Bsp143I GATC 4 cut(s) 675, 969, 1017, 1159
Bsp1720I GCTNAGC 1 cut(s) 504
BspACI CCGC 2 cut(s) 554, 631
BspANI GGCC 5 cut(s) 22, 127, 544, 608, 684
BspCNI CTCAG 2 cut(s) 496, 692
BspLI GGNNCC 3 cut(s) 17, 1375, 1394
BspMI ACCTGC 2 cut(s) 806, 1414
BspT107I GGYRCC 1 cut(s) 15
BsrFI RCCGGY 1 cut(s) 18
BssAI RCCGGY 1 cut(s) 18
BssMI GATC 4 cut(s) 675, 969, 1017, 1159
BssNAI GTATAC 1 cut(s) 1066
Bst1107I GTATAC 1 cut(s) 1066
Bst4CI ACNGT 4 cut(s) 62, 967, 1268, 1465
Bst6I CTCTTC 1 cut(s) 95
BstC8I GCNNGC 3 cut(s) 20, 802, 899
BstDEI CTNAG 2 cut(s) 504, 679
BstF5I GGATG 3 cut(s) 640, 790, 987
BstKTI GATC 4 cut(s) 678, 972, 1020, 1162
BstMBI GATC 4 cut(s) 675, 969, 1017, 1159
BstMWI GCNNNNNNNGC 1 cut(s) 933
BstNSI RCATGY 2 cut(s) 792, 1524
BstSFI CTRYAG 1 cut(s) 829
BstV1I GCAGC 2 cut(s) 643, 646
BstZ17I GTATAC 1 cut(s) 1066
BsuRI GGCC 5 cut(s) 22, 127, 544, 608, 684
BtgZI GCGATG 1 cut(s) 728
BtrI CACGTC 1 cut(s) 1273
BtsCI GGATG 3 cut(s) 640, 790, 987
BtsIMutI CAGTG 2 cut(s) 1030, 1470
BveI ACCTGC 2 cut(s) 806, 1414
Cac8I GCNNGC 3 cut(s) 20, 802, 899
CaiI CAGNNNCTG 1 cut(s) 863
Cfr10I RCCGGY 1 cut(s) 18
Cfr13I GGNCC 1 cut(s) 21
Csp6I GTAC 2 cut(s) 58, 249
CviAII CATG 7 cut(s) 610, 739, 789, 902, 1210, 1337, 1521
CviQI GTAC 2 cut(s) 58, 249
DdeI CTNAG 2 cut(s) 504, 679
DpnI GATC 4 cut(s) 677, 971, 1019, 1161
DpnII GATC 4 cut(s) 675, 969, 1017, 1159
DrdI GACNNNNNNGTC 1 cut(s) 1271
DseDI GACNNNNNNGTC 1 cut(s) 1271
Eam1104I CTCTTC 1 cut(s) 95
EarI CTCTTC 1 cut(s) 95
Eco147I AGGCCT 2 cut(s) 127, 684
Eco57I CTGAAG 1 cut(s) 1006
EcoT22I ATGCAT 1 cut(s) 790
FaeI CATG 7 cut(s) 613, 742, 792, 905, 1213, 1340, 1524
FaqI GGGAC 1 cut(s) 1218
FatI CATG 7 cut(s) 609, 738, 788, 901, 1209, 1336, 1520
FauI CCCGC 1 cut(s) 624
FauNDI CATATG 1 cut(s) 664
FbaI TGATCA 1 cut(s) 969
FblI GTMKAC 2 cut(s) 828, 1065
Fnu4HI GCNGC 2 cut(s) 657, 660
FokI GGATG 3 cut(s) 647, 797, 994
Fsp4HI GCNGC 2 cut(s) 657, 660
FspBI CTAG 1 cut(s) 546
GluI GCNGC 2 cut(s) 657, 660
GsaI CCCAGC 1 cut(s) 1086
GsuI CTGGAG 2 cut(s) 738, 1035
HaeIII GGCC 5 cut(s) 22, 127, 544, 608, 684
HapII CCGG 1 cut(s) 19
Hin1II CATG 7 cut(s) 613, 742, 792, 905, 1213, 1340, 1524
HincII GTYRAC 1 cut(s) 771
HindII GTYRAC 1 cut(s) 771
HinfI GANTC 3 cut(s) 1122, 1206, 1478
HpaII CCGG 1 cut(s) 19
HphI GGTGA 5 cut(s) 328, 460, 614, 685, 1438
Hpy166II GTNNAC 7 cut(s) 65, 559, 771, 829, 1047, 1066, 1167
Hpy188I TCNGA 4 cut(s) 1036, 1154, 1287, 1417
Hpy188III TCNNGA 8 cut(s) 586, 650, 755, 1052, 1126, 1262, 1385, 1508
Hpy8I GTNNAC 7 cut(s) 65, 559, 771, 829, 1047, 1066, 1167
HpyAV CCTTC 2 cut(s) 313, 633
HpyCH4III ACNGT 4 cut(s) 62, 967, 1268, 1465
HpyCH4IV ACGT 1 cut(s) 1272
HpyF10VI GCNNNNNNNGC 1 cut(s) 933
HpyF3I CTNAG 2 cut(s) 504, 679
HpySE526I ACGT 1 cut(s) 1272
Hsp92II CATG 7 cut(s) 613, 742, 792, 905, 1213, 1340, 1524
KroI GCCGGC 1 cut(s) 18
KroNI GCCGGC 1 cut(s) 20
Ksp22I TGATCA 1 cut(s) 969
Kzo9I GATC 4 cut(s) 675, 969, 1017, 1159
LmnI GCTCC 1 cut(s) 1373
Lsp1109I GCAGC 2 cut(s) 643, 646
LweI GCATC 6 cut(s) 643, 705, 775, 850, 1158, 1501
MaeI CTAG 1 cut(s) 546
MaeII ACGT 1 cut(s) 1272
MaeIII GTNAC 7 cut(s) 31, 136, 448, 724, 1268, 1366, 1426
MalI GATC 4 cut(s) 677, 971, 1019, 1161
MboI GATC 4 cut(s) 675, 969, 1017, 1159
MboII GAAGA 4 cut(s) 112, 433, 542, 1012
MfeI CAATTG 1 cut(s) 40
MluCI AATT 9 cut(s) 40, 337, 385, 404, 805, 954, 1254, 1445, 1496
MlyI GAGTC 3 cut(s) 1116, 1200, 1487
MmeI TCCRAC 1 cut(s) 474
Mph1103I ATGCAT 1 cut(s) 790
MroNI GCCGGC 1 cut(s) 18
MseI TTAA 6 cut(s) 51, 144, 174, 1140, 1448, 1525
MslI CAYNNNNRTG 2 cut(s) 566, 1463
MspA1I CMGCKG 1 cut(s) 554
MspI CCGG 1 cut(s) 19
MunI CAATTG 1 cut(s) 40
MwoI GCNNNNNNNGC 1 cut(s) 933
NaeI GCCGGC 1 cut(s) 20
NdeI CATATG 1 cut(s) 664
NdeII GATC 4 cut(s) 675, 969, 1017, 1159
NgoMIV GCCGGC 1 cut(s) 18
NlaIII CATG 7 cut(s) 613, 742, 792, 905, 1213, 1340, 1524
NlaIV GGNNCC 3 cut(s) 17, 1375, 1394
NmuCI GTSAC 4 cut(s) 448, 1268, 1366, 1426
NsiI ATGCAT 1 cut(s) 790
NspI RCATGY 2 cut(s) 792, 1524
OliI CACNNNNGTG 1 cut(s) 1463
PaqCI CACCTGC 1 cut(s) 1414
PceI AGGCCT 2 cut(s) 127, 684
PciI ACATGT 1 cut(s) 1520
PdiI GCCGGC 1 cut(s) 20
PkrI GCNGC 2 cut(s) 658, 661
PleI GAGTC 3 cut(s) 1116, 1200, 1486
PpsI GAGTC 3 cut(s) 1116, 1200, 1486
PscI ACATGT 1 cut(s) 1520
PshBI ATTAAT 1 cut(s) 51
PspFI CCCAGC 1 cut(s) 1082
PspN4I GGNNCC 3 cut(s) 17, 1375, 1394
PspPI GGNCC 1 cut(s) 21
PstNI CAGNNNCTG 1 cut(s) 863
RsaI GTAC 2 cut(s) 59, 250
RsaNI GTAC 2 cut(s) 58, 249
RseI CAYNNNNRTG 2 cut(s) 566, 1463
SaqAI TTAA 6 cut(s) 51, 144, 174, 1140, 1448, 1525
SatI GCNGC 2 cut(s) 657, 660
Sau3AI GATC 4 cut(s) 675, 969, 1017, 1159
Sau96I GGNCC 1 cut(s) 21
SchI GAGTC 3 cut(s) 1116, 1200, 1487
SfaNI GCATC 6 cut(s) 643, 705, 775, 850, 1158, 1501
SfcI CTRYAG 1 cut(s) 829
SmiMI CAYNNNNRTG 2 cut(s) 566, 1463
SmlI CTYRAG 2 cut(s) 410, 1124
SmoI CTYRAG 2 cut(s) 410, 1124
Sse9I AATT 9 cut(s) 40, 337, 385, 404, 805, 954, 1254, 1445, 1496
SseBI AGGCCT 2 cut(s) 127, 684
SsiI CCGC 2 cut(s) 554, 631
SspMI CTAG 1 cut(s) 546
StuI AGGCCT 2 cut(s) 127, 684
TaaI ACNGT 4 cut(s) 62, 967, 1268, 1465
TaiI ACGT 1 cut(s) 1275
TaqI TCGA 3 cut(s) 705, 1110, 1233
TasI AATT 9 cut(s) 40, 337, 385, 404, 805, 954, 1254, 1445, 1496
TatI WGTACW 1 cut(s) 248
Tru1I TTAA 6 cut(s) 51, 144, 174, 1140, 1448, 1525
Tru9I TTAA 6 cut(s) 51, 144, 174, 1140, 1448, 1525
TscAI CASTG 2 cut(s) 1030, 1470
TseFI GTSAC 4 cut(s) 448, 1268, 1366, 1426
TseI GCWGC 2 cut(s) 656, 659
Tsp45I GTSAC 4 cut(s) 448, 1268, 1366, 1426
TspDTI ATGAA 6 cut(s) 113, 434, 626, 948, 966, 1356
TspRI CASTG 2 cut(s) 1030, 1470
VspI ATTAAT 1 cut(s) 51
XapI RAATTY 2 cut(s) 337, 954
XceI RCATGY 2 cut(s) 792, 1524
XmiI GTMKAC 2 cut(s) 828, 1065
XspI CTAG 1 cut(s) 546
Zsp2I ATGCAT 1 cut(s) 790
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.