Rroxscaffold_1G00070830

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0003805
Physical Location & Seq
Forward (+)
91779554 .. 91780702
1149 bp
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UTR
Exon/CDS
Intron
Rroxscaffold_1G00070830.1

Sequence Viewer

Length: 1149 bp
ATGTCGTTTTGTCGCCTCCTCCGTCGTGCATTATCCACCGCCGCCACCCAGCCCAAACCAACAACCGCCAAGAGCATCAGAGCCATCTCGGCCGACCTCGACAGAGAGCGCAACCTCAAACGCCTCGTCAAGAAGTTCAAAGAGTCCTCAGAGCTCTACCGCTTCCGAACCAAAACCCCCATTTACGAAGAGACCGTTCGCCGCCTCACCAACGCCAAGCGCTTCCGTGCGATCGAAGAAATCTTAGAGGACCAGAAGAAGTACCCGGATTTCTCCGACGAGGGTTTCGCCGTCCGAATCCTTTCTCTTTATGGAAAGGCCGGCATGTTTGATAATGCCCAGAAGGTGTTCGACGAAATGCCTGAGAGAAACTGCGGCCGCACCGTGTTGTCTTTCAATGCCCTCCTGGGGGCCTGCGTGAGCTCCAAGAAGTTTGATATGGTTGAGAAGATTTTCGGGGAGGTACCGGAGAAGTTGTCGATCGAGCCGGATTTGGTGTCGTACAATACTGTGATCAAGGCATTTTGCAAGATGGGTTCGTTTGACTCTGCGGTTTCGGTGATTGATGTGATGGAGAAGAAGGGTGTGAAGCCGGATGTAATCACGTTTAATACGATTTTGGATTGCTTGTATGGGAATAAGCGGTTTTTGGATGCTGAGAAGATATGGGGTCAAATGGTGGAGAAGAATGTCGTTCCTAATATTAGGAGCTACAACGCCAAATTGCTGGGGTTGGCTTTGGAGAAGAGGAGTGAAGAAGGGGCTCAGTTAGTTGAAGAGTTGAGGAATATTGGAGTGAAACCTGATGTGTTCACCTTCAATGCCTTGATTAAGGGCTTTGTGAATGAGGGGAACTTGGATGAAGCTAAGCGGTGGTATGGTGAAATAGAGAAGACTAGTTGTGCTCCGGATAAATGGACTTTCGAGACGCTTGTTCCCTTTGTTTGTGAGAAGGGTGATGTTGAGTTTGCTTTTGAGCTCTGCAAGGACATTTTCCAAAGGCGCCGCCTTGTGAGTGCGGCACTGTTGCAGCCTGTGGTGGATGGACTGGTCAAGGCCTCCATGATTGAGGAGGCAAAGGAACTTGTCAAACTTGGGAACACTAATAACTACAGACGTTTTAATCTGAAGCTGACTTCAGACAAATAG

Protein Analysis

382

Amino Acids

43.57

Weight (kDa)

8.98

Isoelectric Point (pI)

46.92

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 100 - 140 7.1e-06 PPR repeat family
PPR_long PF17177 110 - 199 2e-06 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 158 - 209 6.7e-11 Pentatricopeptide repeat domain
PPR_1 PF12854 161 - 192 1.9e-09 PPR repeat
TPR_24 PF23276 162 - 219 3.3e-06 Fungal tetratrico peptide repeats
PPR_2 PF13041 163 - 210 7.1e-16 PPR repeat family
PPR PF01535 166 - 196 1.5e-07 PPR repeat
PPR_3 PF13812 187 - 240 5.4e-09 Pentatricopeptide repeat domain
PPR_2 PF13041 198 - 245 7.2e-10 PPR repeat family
PPR_2 PF13041 233 - 282 2e-07 PPR repeat family
PPR_3 PF13812 257 - 311 2.3e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 265 - 291 8.5e-08 PPR repeat
PPR_2 PF13041 268 - 312 4.8e-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) 463
AccB1I GGYRCC 2 cut(s) 463, 1002
AccIII TCCGGA 1 cut(s) 907
AcoI YGGCCR 2 cut(s) 90, 376
AcuI CTGAAG 2 cut(s) 1122, 1148
AcyI GRCGYC 1 cut(s) 1003
AfaI GTAC 3 cut(s) 263, 465, 503
AfeI AGCGCT 1 cut(s) 221
AfiI CCNNNNNNNGG 2 cut(s) 408, 409
AgsI TTSAA 4 cut(s) 139, 397, 776, 820
AhlI ACTAGT 1 cut(s) 896
AjnI CCWGG 1 cut(s) 405
AluBI AGCT 6 cut(s) 154, 423, 711, 866, 979, 1132
AluI AGCT 6 cut(s) 154, 423, 711, 866, 979, 1132
Alw21I GWGCWC 4 cut(s) 156, 425, 907, 981
Alw26I GTCTC 2 cut(s) 185, 920
Aor13HI TCCGGA 1 cut(s) 907
Aor51HI AGCGCT 1 cut(s) 221
AoxI GGCC 5 cut(s) 90, 318, 376, 411, 1056
ApeKI GCWGC 1 cut(s) 1030
ArsI GACNNNNNNTTYG 4 cut(s) 111, 143, 269, 301
Asp700I GAANNNNTTC 3 cut(s) 301, 347, 452
Asp718I GGTACC 1 cut(s) 463
AspLEI GCGC 3 cut(s) 111, 222, 1005
AspS9I GGNCC 2 cut(s) 250, 411
AsuC2I CCSGG 1 cut(s) 266
AsuHPI GGTGA 5 cut(s) 199, 571, 805, 893, 968
AvaII GGWCC 1 cut(s) 250
BanI GGYRCC 2 cut(s) 463, 1002
BanII GRGCYC 4 cut(s) 156, 425, 766, 981
BbsI GAAGAC 1 cut(s) 899
Bbv12I GWGCWC 4 cut(s) 156, 425, 907, 981
BbvI GCAGC 1 cut(s) 1042
BccI CCATC 4 cut(s) 92, 526, 565, 1037
BceAI ACGGC 1 cut(s) 275
BciT130I CCWGG 1 cut(s) 407
BclI TGATCA 1 cut(s) 513
BcnI CCSGG 1 cut(s) 266
BcoDI GTCTC 2 cut(s) 185, 920
BcuI ACTAGT 1 cut(s) 896
BfaI CTAG 1 cut(s) 897
BfmI CTRYAG 1 cut(s) 1111
BfoI RGCGCY 2 cut(s) 223, 1006
BglI GCCNNNNNGGC 1 cut(s) 89
BisI GCNGC 7 cut(s) 42, 202, 376, 379, 1006, 1020, 1031
BlpI GCTNAGC 1 cut(s) 867
BlsI GCNGC 7 cut(s) 43, 203, 377, 380, 1007, 1021, 1032
Bme1390I CCNGG 2 cut(s) 266, 407
Bme18I GGWCC 1 cut(s) 250
BmgT120I GGNCC 2 cut(s) 250, 411
BmiI GGNNCC 3 cut(s) 412, 465, 1004
BmrFI CCNGG 2 cut(s) 266, 407
BmsI GCATC 2 cut(s) 84, 643
BpiI GAAGAC 1 cut(s) 899
Bpu1102I GCTNAGC 1 cut(s) 867
BpuMI CCSGG 1 cut(s) 266
BsaHI GRCGYC 1 cut(s) 1003
BsaI GGTCTC 1 cut(s) 185
BsaJI CCNNGG 1 cut(s) 406
BsaWI WCCGGW 2 cut(s) 466, 907
BsaXI ACNNNNNCTCC 2 cut(s) 461, 491
Bsc4I CCNNNNNNNGG 2 cut(s) 408, 409
Bse118I RCCGGY 1 cut(s) 320
Bse1I ACTGG 1 cut(s) 1053
BseAI TCCGGA 1 cut(s) 907
BseBI CCWGG 1 cut(s) 407
BseDI CCNNGG 1 cut(s) 406
BseGI GGATG 4 cut(s) 601, 658, 865, 1048
BseLI CCNNNNNNNGG 2 cut(s) 408, 409
BseMII CTCAG 4 cut(s) 162, 354, 648, 779
BseNI ACTGG 1 cut(s) 1053
BseRI GAGGAG 3 cut(s) 8, 763, 1085
BseX3I CGGCCG 2 cut(s) 90, 376
BseXI GCAGC 1 cut(s) 1042
BseYI CCCAGC 2 cut(s) 48, 727
Bsh1285I CGRYCG 4 cut(s) 93, 234, 379, 483
BshFI GGCC 5 cut(s) 92, 320, 378, 413, 1058
BshNI GGYRCC 2 cut(s) 463, 1002
BsiEI CGRYCG 4 cut(s) 93, 234, 379, 483
BsiHKAI GWGCWC 4 cut(s) 156, 425, 907, 981
BsiSI CCGG 6 cut(s) 266, 321, 467, 488, 593, 908
BslI CCNNNNNNNGG 2 cut(s) 408, 409
BsmAI GTCTC 2 cut(s) 185, 920
BsmBI CGTCTC 1 cut(s) 920
BsnI GGCC 5 cut(s) 92, 320, 378, 413, 1058
Bso31I GGTCTC 1 cut(s) 185
Bsp1286I GDGCHC 5 cut(s) 156, 425, 766, 907, 981
Bsp13I TCCGGA 1 cut(s) 907
Bsp143I GATC 3 cut(s) 231, 480, 513
Bsp1720I GCTNAGC 1 cut(s) 867
BspANI GGCC 5 cut(s) 92, 320, 378, 413, 1058
BspCNI CTCAG 4 cut(s) 161, 355, 649, 778
BspEI TCCGGA 1 cut(s) 907
BspLI GGNNCC 3 cut(s) 412, 465, 1004
BspT107I GGYRCC 2 cut(s) 463, 1002
BspTNI GGTCTC 1 cut(s) 185
BsrFI RCCGGY 1 cut(s) 320
BsrI ACTGG 1 cut(s) 1053
BssAI RCCGGY 1 cut(s) 320
BssECI CCNNGG 1 cut(s) 406
BssMI GATC 3 cut(s) 231, 480, 513
BssNI GRCGYC 1 cut(s) 1003
Bst2UI CCWGG 1 cut(s) 407
Bst4CI ACNGT 4 cut(s) 196, 385, 511, 1026
Bst6I CTCTTC 3 cut(s) 183, 740, 771
BstACI GRCGYC 1 cut(s) 1003
BstC8I GCNNGC 2 cut(s) 322, 415
BstDEI CTNAG 6 cut(s) 148, 244, 363, 657, 765, 867
BstF5I GGATG 4 cut(s) 601, 658, 865, 1048
BstH2I RGCGCY 2 cut(s) 223, 1006
BstHHI GCGC 3 cut(s) 111, 222, 1005
BstKTI GATC 3 cut(s) 234, 483, 516
BstMAI GTCTC 2 cut(s) 185, 920
BstMBI GATC 3 cut(s) 231, 480, 513
BstMCI CGRYCG 4 cut(s) 93, 234, 379, 483
BstMWI GCNNNNNNNGC 1 cut(s) 89
BstNI CCWGG 1 cut(s) 407
BstNSI RCATGY 1 cut(s) 328
BstSCI CCNGG 2 cut(s) 264, 405
BstSFI CTRYAG 1 cut(s) 1111
BstV1I GCAGC 1 cut(s) 1042
BstV2I GAAGAC 1 cut(s) 899
BstXI CCANNNNNNTGG 1 cut(s) 727
BstZI CGGCCG 2 cut(s) 90, 376
BsuRI GGCC 5 cut(s) 92, 320, 378, 413, 1058
BtsCI GGATG 4 cut(s) 601, 658, 865, 1048
BtsIMutI CAGTG 1 cut(s) 1022
Cac8I GCNNGC 2 cut(s) 322, 415
CciNI GCGGCCGC 1 cut(s) 376
CfoI GCGC 3 cut(s) 111, 222, 1005
Cfr10I RCCGGY 1 cut(s) 320
Cfr13I GGNCC 2 cut(s) 250, 411
CseI GACGC 1 cut(s) 937
Csp6I GTAC 3 cut(s) 262, 464, 502
CviAII CATG 2 cut(s) 325, 1063
CviQI GTAC 3 cut(s) 262, 464, 502
DdeI CTNAG 6 cut(s) 148, 244, 363, 657, 765, 867
DinI GGCGCC 1 cut(s) 1004
DpnI GATC 3 cut(s) 233, 482, 515
DpnII GATC 3 cut(s) 231, 480, 513
EaeI YGGCCR 2 cut(s) 90, 376
EagI CGGCCG 2 cut(s) 90, 376
Eam1104I CTCTTC 3 cut(s) 183, 740, 771
EarI CTCTTC 3 cut(s) 183, 740, 771
Ecl136II GAGCTC 3 cut(s) 154, 423, 979
EclXI CGGCCG 2 cut(s) 90, 376
Eco147I AGGCCT 1 cut(s) 1058
Eco24I GRGCYC 4 cut(s) 156, 425, 766, 981
Eco31I GGTCTC 1 cut(s) 185
Eco47I GGWCC 1 cut(s) 250
Eco47III AGCGCT 1 cut(s) 221
Eco52I CGGCCG 2 cut(s) 90, 376
Eco53kI GAGCTC 3 cut(s) 154, 423, 979
Eco57I CTGAAG 2 cut(s) 1122, 1148
EcoICRI GAGCTC 3 cut(s) 154, 423, 979
EcoO109I RGGNCCY 1 cut(s) 411
EcoRII CCWGG 1 cut(s) 405
EcoT38I GRGCYC 4 cut(s) 156, 425, 766, 981
EgeI GGCGCC 1 cut(s) 1004
EheI GGCGCC 1 cut(s) 1004
Esp3I CGTCTC 1 cut(s) 920
FaeI CATG 2 cut(s) 328, 1066
FaiI YATR 7 cut(s) 312, 326, 440, 633, 667, 879, 1064
FatI CATG 2 cut(s) 324, 1062
FbaI TGATCA 1 cut(s) 513
Fnu4HI GCNGC 7 cut(s) 42, 202, 376, 379, 1006, 1020, 1031
FokI GGATG 4 cut(s) 608, 665, 872, 1055
FriOI GRGCYC 4 cut(s) 156, 425, 766, 981
Fsp4HI GCNGC 7 cut(s) 42, 202, 376, 379, 1006, 1020, 1031
FspBI CTAG 1 cut(s) 897
GlaI GCGC 3 cut(s) 110, 221, 1004
GluI GCNGC 7 cut(s) 42, 202, 376, 379, 1006, 1020, 1031
GsaI CCCAGC 2 cut(s) 52, 731
HaeII RGCGCY 2 cut(s) 223, 1006
HaeIII GGCC 5 cut(s) 92, 320, 378, 413, 1058
HapII CCGG 6 cut(s) 266, 321, 467, 488, 593, 908
HgaI GACGC 1 cut(s) 937
HhaI GCGC 3 cut(s) 111, 222, 1005
Hin1I GRCGYC 1 cut(s) 1003
Hin1II CATG 2 cut(s) 328, 1066
Hin6I GCGC 3 cut(s) 109, 220, 1003
HinP1I GCGC 3 cut(s) 109, 220, 1003
HinfI GANTC 3 cut(s) 143, 297, 545
HpaII CCGG 6 cut(s) 266, 321, 467, 488, 593, 908
HphI GGTGA 5 cut(s) 199, 571, 805, 893, 968
Hpy166II GTNNAC 1 cut(s) 813
Hpy188I TCNGA 7 cut(s) 80, 151, 167, 277, 296, 1128, 1141
Hpy188III TCNNGA 3 cut(s) 130, 908, 925
Hpy8I GTNNAC 1 cut(s) 813
Hpy99I CGWCG 3 cut(s) 27, 281, 356
HpyAV CCTTC 5 cut(s) 337, 574, 752, 826, 946
HpyCH4III ACNGT 4 cut(s) 196, 385, 511, 1026
HpyCH4IV ACGT 2 cut(s) 605, 1117
HpyCH4V TGCA 4 cut(s) 29, 528, 984, 1030
HpyF10VI GCNNNNNNNGC 1 cut(s) 89
HpyF3I CTNAG 6 cut(s) 148, 244, 363, 657, 765, 867
HpySE526I ACGT 2 cut(s) 605, 1117
Hsp92I GRCGYC 1 cut(s) 1003
Hsp92II CATG 2 cut(s) 328, 1066
HspAI GCGC 3 cut(s) 109, 220, 1003
KasI GGCGCC 1 cut(s) 1002
Kpn2I TCCGGA 1 cut(s) 907
KpnI GGTACC 1 cut(s) 467
KroI GCCGGC 1 cut(s) 320
KroNI GCCGGC 1 cut(s) 322
Ksp22I TGATCA 1 cut(s) 513
Kzo9I GATC 3 cut(s) 231, 480, 513
LmnI GCTCC 3 cut(s) 428, 708, 910
Lsp1109I GCAGC 1 cut(s) 1042
LweI GCATC 2 cut(s) 84, 643
MaeI CTAG 1 cut(s) 897
MaeII ACGT 2 cut(s) 605, 1117
MalI GATC 3 cut(s) 233, 482, 515
MboI GATC 3 cut(s) 231, 480, 513
MhlI GDGCHC 5 cut(s) 156, 425, 766, 907, 981
MluCI AATT 1 cut(s) 722
Mly113I GGCGCC 1 cut(s) 1003
MlyI GAGTC 2 cut(s) 152, 539
MmeI TCCRAC 1 cut(s) 300
MroI TCCGGA 1 cut(s) 907
MroNI GCCGGC 1 cut(s) 320
MroXI GAANNNNTTC 3 cut(s) 301, 347, 452
MseI TTAA 3 cut(s) 609, 831, 1122
MspI CCGG 6 cut(s) 266, 321, 467, 488, 593, 908
MspR9I CCNGG 2 cut(s) 266, 407
MvaI CCWGG 1 cut(s) 407
MwoI GCNNNNNNNGC 1 cut(s) 89
NaeI GCCGGC 1 cut(s) 322
NarI GGCGCC 1 cut(s) 1003
NciI CCSGG 1 cut(s) 266
NdeII GATC 3 cut(s) 231, 480, 513
NgoMIV GCCGGC 1 cut(s) 320
NlaIII CATG 2 cut(s) 328, 1066
NlaIV GGNNCC 3 cut(s) 412, 465, 1004
NmeAIII GCCGAG 1 cut(s) 68
NotI GCGGCCGC 1 cut(s) 376
NspI RCATGY 1 cut(s) 328
PceI AGGCCT 1 cut(s) 1058
PcsI WCGNNNNNNNCGW 3 cut(s) 19, 192, 611
PdiI GCCGGC 1 cut(s) 322
PdmI GAANNNNTTC 3 cut(s) 301, 347, 452
PfeI GAWTC 1 cut(s) 297
PkrI GCNGC 7 cut(s) 43, 203, 377, 380, 1007, 1021, 1032
Ple19I CGATCG 2 cut(s) 234, 483
PleI GAGTC 2 cut(s) 151, 539
PluTI GGCGCC 1 cut(s) 1006
PpsI GAGTC 2 cut(s) 151, 539
Psp124BI GAGCTC 3 cut(s) 156, 425, 981
Psp6I CCWGG 1 cut(s) 405
PspFI CCCAGC 2 cut(s) 48, 727
PspGI CCWGG 1 cut(s) 405
PspN4I GGNNCC 3 cut(s) 412, 465, 1004
PspPI GGNCC 2 cut(s) 250, 411
PvuI CGATCG 2 cut(s) 234, 483
RsaI GTAC 3 cut(s) 263, 465, 503
RsaNI GTAC 3 cut(s) 262, 464, 502
SacI GAGCTC 3 cut(s) 156, 425, 981
SaqAI TTAA 3 cut(s) 609, 831, 1122
SatI GCNGC 7 cut(s) 42, 202, 376, 379, 1006, 1020, 1031
Sau3AI GATC 3 cut(s) 231, 480, 513
Sau96I GGNCC 2 cut(s) 250, 411
SchI GAGTC 2 cut(s) 152, 539
ScrFI CCNGG 2 cut(s) 266, 407
SduI GDGCHC 5 cut(s) 156, 425, 766, 907, 981
SfaNI GCATC 2 cut(s) 84, 643
SfcI CTRYAG 1 cut(s) 1111
SfoI GGCGCC 1 cut(s) 1004
SinI GGWCC 1 cut(s) 250
SpeI ACTAGT 1 cut(s) 896
Sse9I AATT 1 cut(s) 722
SseBI AGGCCT 1 cut(s) 1058
SspDI GGCGCC 1 cut(s) 1002
SspI AATATT 2 cut(s) 703, 790
SspMI CTAG 1 cut(s) 897
SstI GAGCTC 3 cut(s) 156, 425, 981
StuI AGGCCT 1 cut(s) 1058
StyD4I CCNGG 2 cut(s) 264, 405
TaaI ACNGT 4 cut(s) 196, 385, 511, 1026
TaiI ACGT 2 cut(s) 608, 1120
TaqI TCGA 6 cut(s) 99, 234, 351, 479, 483, 924
TasI AATT 1 cut(s) 722
TauI GCSGC 6 cut(s) 44, 204, 378, 381, 1008, 1022
TfiI GAWTC 1 cut(s) 297
Tru1I TTAA 3 cut(s) 609, 831, 1122
Tru9I TTAA 3 cut(s) 609, 831, 1122
TscAI CASTG 1 cut(s) 1029
TseI GCWGC 1 cut(s) 1030
TspDTI ATGAA 1 cut(s) 876
TspGWI ACGGA 2 cut(s) 11, 215
TspRI CASTG 1 cut(s) 1029
VpaK11BI GGWCC 1 cut(s) 250
XceI RCATGY 1 cut(s) 328
XmnI GAANNNNTTC 3 cut(s) 301, 347, 452
XspI CTAG 1 cut(s) 897
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.