Rroxscaffold_1G00068250

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0012342
Physical Location & Seq
Forward (+)
89496460 .. 89498179
1720 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00068250.1

Sequence Viewer

Length: 1278 bp
ATGGATCCCAAGCTCTCCTTCGTCAAAGCCCTCATCCGAAACGCCATCACGAGCAGGTCCTACTATACGAGCCGGACCAAGAAGCCTACCCTCTACACGAAAATCAGTCCTCTCGGAAATCCGAACCAAAGCGTGGTTCCGGAGCTCGACGACTGGGTCTCCAAAGGCAACAAGGTCAGCGTCGGCGAGCTCCAACGCATCATTCGCGACCTCCGCAAGCGCAAGCGCTTCTCTCAAGCCCTACAGATTTCTGAGTGGATGAATGAGAAGGGTGTATGCAAGTTTCGGCCGAGTGAACATGCTGTGCAGCTGGATTTGATAGGCAGGGTTCGGGGTTTTCTACAGACGGAGAAGTCCCTTGCTCATTTGCGCAAAATGCAGGAGATGGGGTTTGCTTCGTCGCCTCTTGATTACAATGGGATCATGTGTTTGTATACAAATGGTGGTCAGCATGAGAAGGTCCCTGCTGTGCTAGCTGAGATGAAGGAGAATAATGTATCTCCTGACAACTTCAGCTATAGAATCTGCATCAACTCTTATGGGGTGAGGTCTGATCTTGAAGGAGTCGAAAAGGTTTTGAAAGAGATGGAGGGACAGCCTCACATTGTCATGGACTGGAATACTTATGCTGTTGTTGCTGATTTCTATATAAAGGCAGGCCAAACCAACAAGGCGATTGATGCCTTAAAGAAGTCGGAAGAGAGATGCATAAACAGGGACTATATATGCATGTTGGTGTCTCTGGTGAGGCTTGGTGAGTTTGAAGAAGCTGAGATGGTATTGAAGGAATGGGAAATGTCTGGAAACTGTTACGATTTTCGAGTGCCACAGACTGTGGTAGTAGGGTATTCAGCAAAGGGGTTGTATGAGAGAGCAGAAGCTCTGCTTGAAGACTTGATGGAGAAGGGAAAAGCAACCACCCTTAAAAGTTGGGAAATAGTAGCTGCTGGATATGTCGCTAAGGGTGAGATGGAAAAAGCTTTAAAGTGCATGGAGGTTGCGCTCAGTGTGTGGACAGAGGAAGGACGGAAACCCAACAATAGTTTGATCACAACCTTACTGAGTTGGCTTGGTGATGAATGCAGTGTTGAAGATGCACAAGTTTTTGTTGGATCATTGAGGAAGGTTATCCCAGTGAACAAGCAGATGTATCATGCATTGTTGAAGGCATATGTAAGACGCGGTGAAGAAGTAGATAGAATTCTGGATCGTATGAAGACTGATAAAATAGATCATGATGAAGAAACAAGGAAGATCCTTGACATGAGGCCAACCTAG

Protein Analysis

425

Amino Acids

48.52

Weight (kDa)

8.24

Isoelectric Point (pI)

35.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 138 - 180 5e-08 PPR repeat family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0012342)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G21705
fragaria_vesca FvH4_3g09350
malus_domestica MD00G1095800.v1.1 MD05G1313800.v1.1
prunus_persica Prupe.4G045900_v2.0.a1
pyrus_communis pycom05g29160 pycom10g24750
rosa_chinensis RchiOBHm_Chr5g0008241
rosa_laevigata RLG00000031552
rosa_multiflora Rmu_co8293593.1_g000001 Rmu_sc0001387.1_g000002 Rmu_sc0001626.1_g000024
rosa_roxburghii Rroxscaffold_1G00068250
rosa_rugosa Rorug04G0434700
rosa_samantha Rh5AG063000 Rh5BG059200 Rh5CG069900 Rh5DG058800
rosa_wichuraiana Rw5G005800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 2 cut(s) 155, 352
Acc16I TGCGCA 1 cut(s) 371
Acc36I ACCTGC 1 cut(s) 45
AccB7I CCANNNNNTGG 1 cut(s) 133
AccI GTMKAC 1 cut(s) 434
AccII CGCG 2 cut(s) 207, 1182
AccIII TCCGGA 1 cut(s) 139
AciI CCGC 2 cut(s) 214, 1182
AclWI GGATC 5 cut(s) 12, 428, 1120, 1215, 1249
AcoI YGGCCR 1 cut(s) 287
AcsI RAATTY 1 cut(s) 1200
AcuI CTGAAG 1 cut(s) 496
AfeI AGCGCT 1 cut(s) 227
AfiI CCNNNNNNNGG 1 cut(s) 133
AgsI TTSAA 7 cut(s) 560, 580, 764, 784, 890, 1091, 1165
AjuI GAANNNNNNNTTGG 5 cut(s) 34, 120, 152, 186, 218
Alw21I GWGCWC 2 cut(s) 147, 192
Alw26I GTCTC 2 cut(s) 163, 744
AlwI GGATC 5 cut(s) 12, 428, 1120, 1215, 1249
Aor13HI TCCGGA 1 cut(s) 139
Aor51HI AGCGCT 1 cut(s) 227
AoxI GGCC 3 cut(s) 287, 658, 1268
ApeKI GCWGC 2 cut(s) 307, 944
ApoI RAATTY 1 cut(s) 1200
AspLEI GCGC 4 cut(s) 222, 228, 372, 1003
AspS9I GGNCC 3 cut(s) 57, 75, 460
AsuHPI GGTGA 6 cut(s) 556, 757, 767, 977, 1085, 1196
AsuNHI GCTAGC 1 cut(s) 472
AvaII GGWCC 3 cut(s) 57, 75, 460
BamHI GGATCC 1 cut(s) 4
BanII GRGCYC 2 cut(s) 147, 192
BauI CACGAG 1 cut(s) 49
BbsI GAAGAC 2 cut(s) 897, 1223
Bbv12I GWGCWC 2 cut(s) 147, 192
BbvI GCAGC 2 cut(s) 319, 931
BccI CCATC 6 cut(s) 53, 379, 580, 769, 892, 964
BclI TGATCA 1 cut(s) 1047
BcoDI GTCTC 2 cut(s) 163, 744
BfaI CTAG 2 cut(s) 473, 1276
BfmI CTRYAG 3 cut(s) 242, 341, 517
BfoI RGCGCY 1 cut(s) 229
BfuAI ACCTGC 1 cut(s) 45
BisI GCNGC 2 cut(s) 308, 945
BlsI GCNGC 2 cut(s) 309, 946
Bme18I GGWCC 3 cut(s) 57, 75, 460
BmgT120I GGNCC 3 cut(s) 57, 75, 460
BmiI GGNNCC 3 cut(s) 6, 138, 462
BmrI ACTGGG 2 cut(s) 163, 1127
BmsI GCATC 5 cut(s) 207, 537, 670, 695, 1084
BmtI GCTAGC 1 cut(s) 476
BmuI ACTGGG 2 cut(s) 163, 1127
BpiI GAAGAC 2 cut(s) 897, 1223
Bpu10I CCTNAGC 1 cut(s) 960
BpuEI CTTGAG 1 cut(s) 219
BsaI GGTCTC 1 cut(s) 163
BsaWI WCCGGW 1 cut(s) 139
BsaXI ACNNNNNCTCC 4 cut(s) 143, 173, 374, 404
Bsc4I CCNNNNNNNGG 1 cut(s) 133
Bse1I ACTGG 3 cut(s) 158, 620, 1133
BseAI TCCGGA 1 cut(s) 139
BseGI GGATG 2 cut(s) 33, 264
BseLI CCNNNNNNNGG 1 cut(s) 133
BseMII CTCAG 5 cut(s) 243, 468, 762, 1018, 1052
BseNI ACTGG 3 cut(s) 158, 620, 1133
BseX3I CGGCCG 1 cut(s) 287
BseXI GCAGC 2 cut(s) 319, 931
BsgI GTGCAG 1 cut(s) 326
Bsh1236I CGCG 2 cut(s) 207, 1182
Bsh1285I CGRYCG 1 cut(s) 290
BshFI GGCC 3 cut(s) 289, 660, 1270
BsiEI CGRYCG 1 cut(s) 290
BsiHKAI GWGCWC 2 cut(s) 147, 192
BsiSI CCGG 2 cut(s) 73, 140
BslFI GGGAC 4 cut(s) 340, 446, 606, 731
BslI CCNNNNNNNGG 1 cut(s) 133
BsmAI GTCTC 2 cut(s) 163, 744
BsmFI GGGAC 4 cut(s) 340, 446, 606, 731
BsmI GAATGC 1 cut(s) 1085
BsnI GGCC 3 cut(s) 289, 660, 1270
Bso31I GGTCTC 1 cut(s) 163
Bsp1286I GDGCHC 2 cut(s) 147, 192
Bsp13I TCCGGA 1 cut(s) 139
Bsp143I GATC 8 cut(s) 4, 420, 553, 1047, 1112, 1207, 1231, 1254
Bsp68I TCGCGA 1 cut(s) 207
BspACI CCGC 2 cut(s) 214, 1182
BspANI GGCC 3 cut(s) 289, 660, 1270
BspCNI CTCAG 5 cut(s) 244, 469, 763, 1017, 1053
BspEI TCCGGA 1 cut(s) 139
BspFNI CGCG 2 cut(s) 207, 1182
BspHI TCATGA 1 cut(s) 1234
BspLI GGNNCC 3 cut(s) 6, 138, 462
BspMI ACCTGC 1 cut(s) 45
BspOI GCTAGC 1 cut(s) 476
BspPI GGATC 5 cut(s) 12, 428, 1120, 1215, 1249
BspTNI GGTCTC 1 cut(s) 163
BsrI ACTGG 3 cut(s) 158, 620, 1133
BssMI GATC 8 cut(s) 4, 420, 553, 1047, 1112, 1207, 1231, 1254
BssNAI GTATAC 1 cut(s) 435
BssSI CACGAG 1 cut(s) 49
Bst1107I GTATAC 1 cut(s) 435
Bst2BI CACGAG 1 cut(s) 49
Bst4CI ACNGT 2 cut(s) 809, 835
Bst6I CTCTTC 1 cut(s) 693
BstC8I GCNNGC 5 cut(s) 188, 218, 224, 474, 658
BstDEI CTNAG 6 cut(s) 252, 477, 771, 960, 1004, 1061
BstF5I GGATG 2 cut(s) 33, 264
BstFNI CGCG 2 cut(s) 207, 1182
BstH2I RGCGCY 1 cut(s) 229
BstHHI GCGC 4 cut(s) 222, 228, 372, 1003
BstKTI GATC 8 cut(s) 7, 423, 556, 1050, 1115, 1210, 1234, 1257
BstMAI GTCTC 2 cut(s) 163, 744
BstMBI GATC 8 cut(s) 4, 420, 553, 1047, 1112, 1207, 1231, 1254
BstMCI CGRYCG 1 cut(s) 290
BstMWI GCNNNNNNNGC 6 cut(s) 204, 213, 376, 473, 635, 680
BstNSI RCATGY 2 cut(s) 302, 733
BstSFI CTRYAG 3 cut(s) 242, 341, 517
BstUI CGCG 2 cut(s) 207, 1182
BstV1I GCAGC 2 cut(s) 319, 931
BstV2I GAAGAC 2 cut(s) 897, 1223
BstX2I RGATCY 2 cut(s) 4, 1254
BstYI RGATCY 2 cut(s) 4, 1254
BstZ17I GTATAC 1 cut(s) 435
BstZI CGGCCG 1 cut(s) 287
BsuRI GGCC 3 cut(s) 289, 660, 1270
BtsCI GGATG 2 cut(s) 33, 264
BtsI GCAGTG 1 cut(s) 1090
BtsIMutI CAGTG 3 cut(s) 1012, 1090, 1140
BtuMI TCGCGA 1 cut(s) 207
BveI ACCTGC 1 cut(s) 45
Cac8I GCNNGC 5 cut(s) 188, 218, 224, 474, 658
CciI TCATGA 1 cut(s) 1234
CfoI GCGC 4 cut(s) 222, 228, 372, 1003
Cfr13I GGNCC 3 cut(s) 57, 75, 460
CseI GACGC 2 cut(s) 169, 1188
CviAII CATG 9 cut(s) 299, 424, 452, 610, 730, 991, 1154, 1235, 1264
DdeI CTNAG 6 cut(s) 252, 477, 771, 960, 1004, 1061
DpnI GATC 8 cut(s) 6, 422, 555, 1049, 1114, 1209, 1233, 1256
DpnII GATC 8 cut(s) 4, 420, 553, 1047, 1112, 1207, 1231, 1254
DraI TTTAAA 1 cut(s) 984
DrdI GACNNNNNNGTC 2 cut(s) 155, 352
DseDI GACNNNNNNGTC 2 cut(s) 155, 352
EaeI YGGCCR 1 cut(s) 287
EagI CGGCCG 1 cut(s) 287
Eam1104I CTCTTC 1 cut(s) 693
EarI CTCTTC 1 cut(s) 693
Ecl136II GAGCTC 2 cut(s) 145, 190
EclXI CGGCCG 1 cut(s) 287
Eco24I GRGCYC 2 cut(s) 147, 192
Eco31I GGTCTC 1 cut(s) 163
Eco47I GGWCC 3 cut(s) 57, 75, 460
Eco47III AGCGCT 1 cut(s) 227
Eco52I CGGCCG 1 cut(s) 287
Eco53kI GAGCTC 2 cut(s) 145, 190
Eco57I CTGAAG 1 cut(s) 496
EcoICRI GAGCTC 2 cut(s) 145, 190
EcoO109I RGGNCCY 2 cut(s) 57, 460
EcoRI GAATTC 1 cut(s) 1200
EcoT22I ATGCAT 3 cut(s) 710, 731, 1159
EcoT38I GRGCYC 2 cut(s) 147, 192
FaeI CATG 9 cut(s) 302, 427, 455, 613, 733, 994, 1157, 1238, 1267
FalI AAGNNNNNCTT 3 cut(s) 34, 870, 902
FaqI GGGAC 4 cut(s) 340, 446, 606, 731
FatI CATG 9 cut(s) 298, 423, 451, 609, 729, 990, 1153, 1234, 1263
FauNDI CATATG 1 cut(s) 1171
FbaI TGATCA 1 cut(s) 1047
FblI GTMKAC 1 cut(s) 434
Fnu4HI GCNGC 2 cut(s) 308, 945
FokI GGATG 2 cut(s) 20, 271
FriOI GRGCYC 2 cut(s) 147, 192
Fsp4HI GCNGC 2 cut(s) 308, 945
FspBI CTAG 2 cut(s) 473, 1276
FspI TGCGCA 1 cut(s) 371
GlaI GCGC 4 cut(s) 221, 227, 371, 1002
GluI GCNGC 2 cut(s) 308, 945
HaeII RGCGCY 1 cut(s) 229
HaeIII GGCC 3 cut(s) 289, 660, 1270
HapII CCGG 2 cut(s) 73, 140
HgaI GACGC 2 cut(s) 169, 1188
HhaI GCGC 4 cut(s) 222, 228, 372, 1003
Hin1II CATG 9 cut(s) 302, 427, 455, 613, 733, 994, 1157, 1238, 1267
Hin6I GCGC 4 cut(s) 220, 226, 370, 1001
HinP1I GCGC 4 cut(s) 220, 226, 370, 1001
HindIII AAGCTT 1 cut(s) 978
HinfI GANTC 2 cut(s) 522, 564
HpaII CCGG 2 cut(s) 73, 140
HphI GGTGA 6 cut(s) 556, 757, 767, 977, 1085, 1196
Hpy166II GTNNAC 4 cut(s) 296, 435, 1014, 1138
Hpy188I TCNGA 6 cut(s) 38, 116, 123, 253, 553, 697
Hpy188III TCNNGA 9 cut(s) 49, 140, 206, 407, 503, 557, 801, 1205, 1235
Hpy8I GTNNAC 4 cut(s) 296, 435, 1014, 1138
Hpy99I CGWCG 3 cut(s) 152, 185, 403
HpyCH4III ACNGT 2 cut(s) 809, 835
HpyF10VI GCNNNNNNNGC 6 cut(s) 204, 213, 376, 473, 635, 680
HpyF3I CTNAG 6 cut(s) 252, 477, 771, 960, 1004, 1061
Hsp92II CATG 9 cut(s) 302, 427, 455, 613, 733, 994, 1157, 1238, 1267
HspAI GCGC 4 cut(s) 220, 226, 370, 1001
Kpn2I TCCGGA 1 cut(s) 139
Ksp22I TGATCA 1 cut(s) 1047
Kzo9I GATC 8 cut(s) 4, 420, 553, 1047, 1112, 1207, 1231, 1254
LmnI GCTCC 2 cut(s) 142, 195
Lsp1109I GCAGC 2 cut(s) 319, 931
LweI GCATC 5 cut(s) 207, 537, 670, 695, 1084
MaeI CTAG 2 cut(s) 473, 1276
MaeIII GTNAC 1 cut(s) 809
MalI GATC 8 cut(s) 6, 422, 555, 1049, 1114, 1209, 1233, 1256
MboI GATC 8 cut(s) 4, 420, 553, 1047, 1112, 1207, 1231, 1254
MboII GAAGA 8 cut(s) 710, 776, 902, 1103, 1199, 1228, 1253, 1264
MflI RGATCY 2 cut(s) 4, 1254
MhlI GDGCHC 2 cut(s) 147, 192
MluCI AATT 1 cut(s) 1200
MlyI GAGTC 1 cut(s) 573
MmeI TCCRAC 3 cut(s) 217, 675, 1090
Mph1103I ATGCAT 3 cut(s) 710, 731, 1159
MroI TCCGGA 1 cut(s) 139
MseI TTAA 3 cut(s) 686, 924, 983
MslI CAYNNNNRTG 2 cut(s) 608, 734
MspA1I CMGCKG 1 cut(s) 310
MspI CCGG 2 cut(s) 73, 140
Mva1269I GAATGC 1 cut(s) 1085
MvnI CGCG 2 cut(s) 207, 1182
MwoI GCNNNNNNNGC 6 cut(s) 204, 213, 376, 473, 635, 680
NdeI CATATG 1 cut(s) 1171
NdeII GATC 8 cut(s) 4, 420, 553, 1047, 1112, 1207, 1231, 1254
NheI GCTAGC 1 cut(s) 472
NlaIII CATG 9 cut(s) 302, 427, 455, 613, 733, 994, 1157, 1238, 1267
NlaIV GGNNCC 3 cut(s) 6, 138, 462
NmeAIII GCCGAG 1 cut(s) 315
NruI TCGCGA 1 cut(s) 207
NsbI TGCGCA 1 cut(s) 371
NsiI ATGCAT 3 cut(s) 710, 731, 1159
NspI RCATGY 2 cut(s) 302, 733
PagI TCATGA 1 cut(s) 1234
PctI GAATGC 1 cut(s) 1085
PfeI GAWTC 1 cut(s) 522
PflFI GACNNNGTC 1 cut(s) 155
PflMI CCANNNNNTGG 1 cut(s) 133
PkrI GCNGC 2 cut(s) 309, 946
PleI GAGTC 1 cut(s) 572
PpsI GAGTC 1 cut(s) 572
PpuMI RGGWCCY 2 cut(s) 57, 460
Psp124BI GAGCTC 2 cut(s) 147, 192
Psp5II RGGWCCY 2 cut(s) 57, 460
PspN4I GGNNCC 3 cut(s) 6, 138, 462
PspPI GGNCC 3 cut(s) 57, 75, 460
PspPPI RGGWCCY 2 cut(s) 57, 460
PsuI RGATCY 2 cut(s) 4, 1254
PsyI GACNNNGTC 1 cut(s) 155
PvuII CAGCTG 1 cut(s) 310
RruI TCGCGA 1 cut(s) 207
RseI CAYNNNNRTG 2 cut(s) 608, 734
SacI GAGCTC 2 cut(s) 147, 192
SaqAI TTAA 3 cut(s) 686, 924, 983
SatI GCNGC 2 cut(s) 308, 945
Sau3AI GATC 8 cut(s) 4, 420, 553, 1047, 1112, 1207, 1231, 1254
Sau96I GGNCC 3 cut(s) 57, 75, 460
SchI GAGTC 1 cut(s) 573
SduI GDGCHC 2 cut(s) 147, 192
SfaNI GCATC 5 cut(s) 207, 537, 670, 695, 1084
SfcI CTRYAG 3 cut(s) 242, 341, 517
SinI GGWCC 3 cut(s) 57, 75, 460
SmiMI CAYNNNNRTG 2 cut(s) 608, 734
SmlI CTYRAG 1 cut(s) 234
SmoI CTYRAG 1 cut(s) 234
Sse9I AATT 1 cut(s) 1200
SsiI CCGC 2 cut(s) 214, 1182
SspMI CTAG 2 cut(s) 473, 1276
SstI GAGCTC 2 cut(s) 147, 192
TaaI ACNGT 2 cut(s) 809, 835
TaqI TCGA 3 cut(s) 147, 567, 820
TasI AATT 1 cut(s) 1200
TfiI GAWTC 1 cut(s) 522
Tru1I TTAA 3 cut(s) 686, 924, 983
Tru9I TTAA 3 cut(s) 686, 924, 983
TscAI CASTG 3 cut(s) 1012, 1090, 1140
TseI GCWGC 2 cut(s) 307, 944
TspDTI ATGAA 5 cut(s) 275, 497, 1092, 1229, 1254
TspGWI ACGGA 2 cut(s) 362, 1042
TspRI CASTG 3 cut(s) 1012, 1090, 1140
Tth111I GACNNNGTC 1 cut(s) 155
Van91I CCANNNNNTGG 1 cut(s) 133
VpaK11BI GGWCC 3 cut(s) 57, 75, 460
XapI RAATTY 1 cut(s) 1200
XceI RCATGY 2 cut(s) 302, 733
XmiI GTMKAC 1 cut(s) 434
XspI CTAG 2 cut(s) 473, 1276
Zsp2I ATGCAT 3 cut(s) 710, 731, 1159
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.