Rroxscaffold_3G00227230

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0012995
Physical Location & Seq
Forward (+)
11297622 .. 11299439
1818 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00227230.1

Sequence Viewer

Length: 1491 bp
ATGGATTTAATAGTGCCCACAAAGCAAAACCCTGATGGGTTTTGCTCATTTCACAAACTTCATGGTGGTTTTGGAGGTAGGATTAGTAATAAGTTGAGTCCCACACCAAGTTCTTCAAGGGTCTTTGTGGGCTGCAAAGGGCAGGTTCTTGTTGTATCTGATAGCATTCGGTGTAGGGCACAGGATGGTTACCAGAAACATAGGCGAAAGCAAATAATGGCTGTGTCCAAGGTAGAAACGCTTAGTTCCAATGGTAGGTTGCAAAATGTTGAAAAGACCCAACATGGGAGTTTGAATGGCATGGATTCTTCAAATGGTTTTGAGGAATTTGAGAGTAACAATCAGCTCCGTAGACTGGGCGGGGAGATTGATAATGCCTTGAGGGTGTTGGACAGGATGAGTGTTTCCCCAGATGTTGTTACGTATAATACTATTCTGCGTACATTATGTGATAGTGGGAAATTGAAGCAAGCAATGGAAGTTCTTGATCGGCAATTGCAAAGGGAGTGTTATCCCGATGTGATTACATATACTATACTGATTGAAGCAACTTGCAAGGAAAGTGGGGTTGAGCAGGCGATGAAGCTTTTGGATGAGATGAAGAGCAGAGGATGTAAGCCTGATGTAGTTACATATAATGTTCTTATCAATGGGATTTGCAAGGAAGGGAGGTTGGATGAAGCAATCAAATTCTTGAATGACATGCCAACCTCTGATTGCCAGCCAAATGTTATTACTCATAATATCATATTGCGTAGCATGTGTAGCACTGGGAGGTGGATGGATGCTGAAAGACTATTAGCTGAAATGGTTGGCAAAGGCTGTTCTCCTAGTGTTGTTACTTTCAATATTTTGATTAACTTCTTGAGAAAAAAGATGGACAGGGCAATTGAGTATTTGGATATAATGGTTTCTAGGGGCTGTTACCCGGACATTGTAACCTACAATACTTTGCTCACAGCTTTATGCAAAGATGGAAAGGTTGATGTTGCAGTTGAGATTCTTAATCAATTAAGTAGCAAGGGTTGCTCTCCTGTTCTAATTACTTACAATACCGTGATTGATGGGCTCTCAAAGGTTGGGAAAACAGAACGTGCCATAGAATTATTGGATGAGATGCGTCAAAAGGGTCTAAAGCCTGATATAATAACTTACTCTTCACTTGTAGGAGGGCTTAGTAGAGAAGGAAAGGTTGATGAAGCAATTAAGTTTGTCCGCGATTTGGAAGGGTTGGGTATCAGGCCAAATGCTATCACTTTCAACTGCATCATGCTTGGGCTTTGCAAGGCAAGGCAAACTTCTCGTGCAATTGATTTCCTGGCTCATATGGTATCGAAAGGATGTAAACCTACTGAAGCAACATACACCATTCTCATTGAAGGCATAGCTTATGAAGGCCTAGCAAAAGAGGCTTTGGAGTTGCTCAACGAACTGTGCTATAGAGGGGTGGTGAAGAGAAGTTCAGCTGAACAGGTGGCAGTCAAGATGTAG

Protein Analysis

496

Amino Acids

55.0

Weight (kDa)

8.43

Isoelectric Point (pI)

39.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TPR_24 PF23276 125 - 232 7.4e-08 Fungal tetratrico peptide repeats
PPR_3 PF13812 130 - 184 4.8e-09 Pentatricopeptide repeat domain
PPR_1 PF12854 134 - 163 1.3e-09 PPR repeat
PPR_2 PF13041 137 - 186 6.4e-15 PPR repeat family
PPR_1 PF12854 169 - 201 3.4e-10 PPR repeat
PPR_2 PF13041 172 - 221 1.5e-20 PPR repeat family
PPR_3 PF13812 172 - 219 4.7e-11 Pentatricopeptide repeat domain
PPR PF01535 175 - 205 5e-06 PPR repeat
PPR_3 PF13812 195 - 252 1.9e-11 Pentatricopeptide repeat domain
PPR_1 PF12854 203 - 235 1.3e-16 PPR repeat
PPR_2 PF13041 207 - 255 8.7e-19 PPR repeat family
PPR PF01535 210 - 240 1e-07 PPR repeat
PPR_3 PF13812 232 - 288 1e-09 Pentatricopeptide repeat domain
PPR_1 PF12854 239 - 271 1.8e-08 PPR repeat
PPR_2 PF13041 246 - 289 2.3e-11 PPR repeat family
PPR_long PF17177 264 - 375 6.4e-06 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 291 - 324 1.2e-08 PPR repeat family
PPR_3 PF13812 301 - 355 2.5e-11 Pentatricopeptide repeat domain
PPR_1 PF12854 306 - 337 4.7e-12 PPR repeat
PPR_2 PF13041 310 - 345 3.4e-10 PPR repeat family
PPR PF01535 313 - 343 1.2e-06 PPR repeat
TPR_24 PF23276 316 - 439 1.1e-08 Fungal tetratrico peptide repeats
PPR_1 PF12854 341 - 374 1.2e-10 PPR repeat
PPR_2 PF13041 347 - 393 7.3e-16 PPR repeat family
PPR PF01535 348 - 378 8.6e-09 PPR repeat
PPR_3 PF13812 350 - 390 4.9e-07 Pentatricopeptide repeat domain
PPR_long PF17177 363 - 479 6.1e-12 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 376 - 407 8e-10 PPR repeat
PPR_2 PF13041 388 - 429 6.8e-08 PPR repeat family
PPR_3 PF13812 405 - 460 2.2e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 415 - 462 1.8e-14 PPR repeat family
PPR_1 PF12854 446 - 477 3.3e-06 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0012995)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G09900
fragaria_vesca FvH4_5g34030
malus_domestica MD08G1206600.v1.1 MD15G1390100.v1.1
prunus_persica Prupe.1G539000_v2.0.a1 Prupe.1G539000_v2.0.a1
pyrus_communis pycom08g17840 pycom15g34930
rosa_chinensis RchiOBHm_Chr7g0233521
rosa_laevigata RLG00000001253
rosa_multiflora Rmu_sc0000029.1_g000012
rosa_roxburghii Rroxscaffold_3G00227230
rosa_rugosa Rorug07G0281100.1
rosa_samantha Rh7AG437500 Rh7BG410000 Rh7CG457100 Rh7DG426500
rosa_wichuraiana Rw7G036080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 133
AccI GTMKAC 1 cut(s) 352
AccII CGCG 1 cut(s) 1218
AciI CCGC 2 cut(s) 360, 1216
AcsI RAATTY 2 cut(s) 326, 689
AcuI CTGAAG 1 cut(s) 1374
AfaI GTAC 1 cut(s) 442
AfiI CCNNNNNNNGG 4 cut(s) 255, 285, 355, 1222
AjnI CCWGG 1 cut(s) 1317
AluBI AGCT 6 cut(s) 346, 586, 803, 962, 1388, 1466
AluI AGCT 6 cut(s) 346, 586, 803, 962, 1388, 1466
AoxI GGCC 2 cut(s) 1241, 1396
ApeKI GCWGC 1 cut(s) 132
ApoI RAATTY 2 cut(s) 326, 689
AsuC2I CCSGG 1 cut(s) 929
AsuHPI GGTGA 1 cut(s) 1462
BaeGI GKGCMC 2 cut(s) 18, 181
BanII GRGCYC 1 cut(s) 1071
BauI CACGAG 1 cut(s) 1302
BbvI GCAGC 1 cut(s) 119
BccI CCATC 6 cut(s) 29, 179, 775, 871, 968, 1058
BcgI CGANNNNNNTGC 2 cut(s) 1283, 1317
BciT130I CCWGG 1 cut(s) 1319
BcnI CCSGG 1 cut(s) 929
BfaI CTAG 3 cut(s) 831, 915, 1400
BfmI CTRYAG 1 cut(s) 1438
BfuAI ACCTGC 1 cut(s) 133
BisI GCNGC 1 cut(s) 133
BlsI GCNGC 1 cut(s) 134
Bme1390I CCNGG 2 cut(s) 929, 1319
BmrFI CCNGG 2 cut(s) 929, 1319
BmrI ACTGGG 2 cut(s) 365, 780
BmsI GCATC 3 cut(s) 775, 1107, 1275
BmuI ACTGGG 2 cut(s) 365, 780
BpuEI CTTGAG 2 cut(s) 400, 886
BpuMI CCSGG 1 cut(s) 929
BsaAI YACGTR 1 cut(s) 423
BsaJI CCNNGG 1 cut(s) 228
Bsc4I CCNNNNNNNGG 4 cut(s) 255, 285, 355, 1222
Bse1I ACTGG 2 cut(s) 360, 775
Bse3DI GCAATG 1 cut(s) 480
BseBI CCWGG 1 cut(s) 1319
BseDI CCNNGG 1 cut(s) 228
BseGI GGATG 9 cut(s) 190, 402, 598, 617, 682, 786, 790, 1117, 1346
BseLI CCNNNNNNNGG 4 cut(s) 255, 285, 355, 1222
BseMI GCAATG 1 cut(s) 480
BseNI ACTGG 2 cut(s) 360, 775
BseSI GKGCMC 2 cut(s) 18, 181
BseXI GCAGC 1 cut(s) 119
Bsh1236I CGCG 1 cut(s) 1218
BshFI GGCC 2 cut(s) 1243, 1398
BsiSI CCGG 1 cut(s) 929
BslFI GGGAC 1 cut(s) 84
BslI CCNNNNNNNGG 4 cut(s) 255, 285, 355, 1222
BsmFI GGGAC 1 cut(s) 84
BsmI GAATGC 1 cut(s) 165
BsnI GGCC 2 cut(s) 1243, 1398
Bsp1286I GDGCHC 3 cut(s) 18, 181, 1071
Bsp143I GATC 1 cut(s) 487
BspACI CCGC 2 cut(s) 360, 1216
BspANI GGCC 2 cut(s) 1243, 1398
BspFNI CGCG 1 cut(s) 1218
BspMI ACCTGC 1 cut(s) 133
BspQI GCTCTTC 1 cut(s) 596
BsrDI GCAATG 1 cut(s) 480
BsrI ACTGG 2 cut(s) 360, 775
BssECI CCNNGG 1 cut(s) 228
BssMI GATC 1 cut(s) 487
BssSI CACGAG 1 cut(s) 1302
BssT1I CCWWGG 1 cut(s) 228
Bst2BI CACGAG 1 cut(s) 1302
Bst2UI CCWGG 1 cut(s) 1319
Bst4CI ACNGT 2 cut(s) 1057, 1434
Bst6I CTCTTC 3 cut(s) 596, 1162, 1448
BstAPI GCANNNNNTGC 1 cut(s) 1026
BstBAI YACGTR 1 cut(s) 423
BstC8I GCNNGC 3 cut(s) 471, 576, 722
BstDEI CTNAG 2 cut(s) 242, 1175
BstEII GGTNACC 1 cut(s) 188
BstF5I GGATG 9 cut(s) 190, 402, 598, 617, 682, 786, 790, 1117, 1346
BstFNI CGCG 1 cut(s) 1218
BstKTI GATC 1 cut(s) 490
BstMBI GATC 1 cut(s) 487
BstMWI GCNNNNNNNGC 4 cut(s) 22, 765, 1026, 1409
BstNI CCWGG 1 cut(s) 1319
BstNSI RCATGY 2 cut(s) 706, 763
BstPI GGTNACC 1 cut(s) 188
BstSCI CCNGG 2 cut(s) 927, 1317
BstSFI CTRYAG 1 cut(s) 1438
BstSLI GKGCMC 2 cut(s) 18, 181
BstSNI TACGTA 1 cut(s) 423
BstUI CGCG 1 cut(s) 1218
BstV1I GCAGC 1 cut(s) 119
BsuRI GGCC 2 cut(s) 1243, 1398
BtgZI GCGATG 1 cut(s) 593
BtsCI GGATG 9 cut(s) 190, 402, 598, 617, 682, 786, 790, 1117, 1346
BtsIMutI CAGTG 1 cut(s) 768
BveI ACCTGC 1 cut(s) 133
Cac8I GCNNGC 3 cut(s) 471, 576, 722
CseI GACGC 1 cut(s) 1109
Csp6I GTAC 1 cut(s) 441
CspCI CAANNNNNGTGG 2 cut(s) 544, 579
CviAII CATG 6 cut(s) 62, 284, 301, 703, 760, 1270
CviQI GTAC 1 cut(s) 441
DdeI CTNAG 2 cut(s) 242, 1175
DpnI GATC 1 cut(s) 489
DpnII GATC 1 cut(s) 487
Eam1104I CTCTTC 3 cut(s) 596, 1162, 1448
EarI CTCTTC 3 cut(s) 596, 1162, 1448
Eco105I TACGTA 1 cut(s) 423
Eco130I CCWWGG 1 cut(s) 228
Eco147I AGGCCT 1 cut(s) 1398
Eco24I GRGCYC 1 cut(s) 1071
Eco57I CTGAAG 1 cut(s) 1374
Eco91I GGTNACC 1 cut(s) 188
EcoO65I GGTNACC 1 cut(s) 188
EcoRII CCWGG 1 cut(s) 1317
EcoT14I CCWWGG 1 cut(s) 228
EcoT38I GRGCYC 1 cut(s) 1071
ErhI CCWWGG 1 cut(s) 228
FaeI CATG 6 cut(s) 65, 287, 304, 706, 763, 1273
FalI AAGNNNNNCTT 2 cut(s) 1282, 1314
FaqI GGGAC 1 cut(s) 84
FatI CATG 6 cut(s) 61, 283, 300, 702, 759, 1269
FauI CCCGC 1 cut(s) 353
FauNDI CATATG 1 cut(s) 1326
FblI GTMKAC 1 cut(s) 352
Fnu4HI GCNGC 1 cut(s) 133
FokI GGATG 9 cut(s) 197, 409, 605, 624, 689, 793, 797, 1124, 1353
FriOI GRGCYC 1 cut(s) 1071
Fsp4HI GCNGC 1 cut(s) 133
FspBI CTAG 3 cut(s) 831, 915, 1400
GluI GCNGC 1 cut(s) 133
HaeIII GGCC 2 cut(s) 1243, 1398
HapII CCGG 1 cut(s) 929
HgaI GACGC 1 cut(s) 1109
Hin1II CATG 6 cut(s) 65, 287, 304, 706, 763, 1273
HindIII AAGCTT 1 cut(s) 584
HinfI GANTC 3 cut(s) 97, 305, 1000
HpaII CCGG 1 cut(s) 929
HphI GGTGA 1 cut(s) 1462
Hpy166II GTNNAC 2 cut(s) 353, 1346
Hpy188I TCNGA 2 cut(s) 160, 715
Hpy188III TCNNGA 5 cut(s) 485, 515, 694, 865, 1483
Hpy8I GTNNAC 2 cut(s) 353, 1346
HpyAV CCTTC 5 cut(s) 659, 1178, 1220, 1373, 1388
HpyCH4III ACNGT 2 cut(s) 1057, 1434
HpyCH4IV ACGT 2 cut(s) 422, 1093
HpyF10VI GCNNNNNNNGC 4 cut(s) 22, 765, 1026, 1409
HpyF3I CTNAG 2 cut(s) 242, 1175
HpySE526I ACGT 2 cut(s) 422, 1093
Hsp92II CATG 6 cut(s) 65, 287, 304, 706, 763, 1273
Kzo9I GATC 1 cut(s) 487
LguI GCTCTTC 1 cut(s) 596
LmnI GCTCC 1 cut(s) 351
Lsp1109I GCAGC 1 cut(s) 119
LweI GCATC 3 cut(s) 775, 1107, 1275
MaeI CTAG 3 cut(s) 831, 915, 1400
MaeII ACGT 2 cut(s) 422, 1093
MaeIII GTNAC 7 cut(s) 188, 335, 418, 628, 838, 923, 937
MalI GATC 1 cut(s) 489
MboI GATC 1 cut(s) 487
MboII GAAGA 5 cut(s) 105, 300, 613, 1149, 1465
MfeI CAATTG 3 cut(s) 494, 888, 1308
MhlI GDGCHC 3 cut(s) 18, 181, 1071
MlyI GAGTC 1 cut(s) 106
MmeI TCCRAC 2 cut(s) 369, 654
MseI TTAA 5 cut(s) 8, 858, 1005, 1013, 1206
MspA1I CMGCKG 1 cut(s) 1466
MspI CCGG 1 cut(s) 929
MspR9I CCNGG 2 cut(s) 929, 1319
MunI CAATTG 3 cut(s) 494, 888, 1308
Mva1269I GAATGC 1 cut(s) 165
MvaI CCWGG 1 cut(s) 1319
MvnI CGCG 1 cut(s) 1218
MwoI GCNNNNNNNGC 4 cut(s) 22, 765, 1026, 1409
NciI CCSGG 1 cut(s) 929
NdeI CATATG 1 cut(s) 1326
NdeII GATC 1 cut(s) 487
NlaIII CATG 6 cut(s) 65, 287, 304, 706, 763, 1273
NspI RCATGY 2 cut(s) 706, 763
PceI AGGCCT 1 cut(s) 1398
PciSI GCTCTTC 1 cut(s) 596
PctI GAATGC 1 cut(s) 165
PfeI GAWTC 2 cut(s) 305, 1000
PkrI GCNGC 1 cut(s) 134
PleI GAGTC 1 cut(s) 105
PpsI GAGTC 1 cut(s) 105
Ppu21I YACGTR 1 cut(s) 423
Psp6I CCWGG 1 cut(s) 1317
PspEI GGTNACC 1 cut(s) 188
PspGI CCWGG 1 cut(s) 1317
PvuII CAGCTG 1 cut(s) 1466
RsaI GTAC 1 cut(s) 442
RsaNI GTAC 1 cut(s) 441
SapI GCTCTTC 1 cut(s) 596
SaqAI TTAA 5 cut(s) 8, 858, 1005, 1013, 1206
SatI GCNGC 1 cut(s) 133
Sau3AI GATC 1 cut(s) 487
SchI GAGTC 1 cut(s) 106
ScrFI CCNGG 2 cut(s) 929, 1319
SduI GDGCHC 3 cut(s) 18, 181, 1071
SfaNI GCATC 3 cut(s) 775, 1107, 1275
SfcI CTRYAG 1 cut(s) 1438
SmlI CTYRAG 2 cut(s) 379, 865
SmoI CTYRAG 2 cut(s) 379, 865
SnaBI TACGTA 1 cut(s) 423
SseBI AGGCCT 1 cut(s) 1398
SsiI CCGC 2 cut(s) 360, 1216
SspI AATATT 1 cut(s) 850
SspMI CTAG 3 cut(s) 831, 915, 1400
StuI AGGCCT 1 cut(s) 1398
StyD4I CCNGG 2 cut(s) 927, 1317
StyI CCWWGG 1 cut(s) 228
TaaI ACNGT 2 cut(s) 1057, 1434
TaiI ACGT 2 cut(s) 425, 1096
TaqI TCGA 1 cut(s) 1334
TfiI GAWTC 2 cut(s) 305, 1000
Tru1I TTAA 5 cut(s) 8, 858, 1005, 1013, 1206
Tru9I TTAA 5 cut(s) 8, 858, 1005, 1013, 1206
TscAI CASTG 1 cut(s) 775
TseI GCWGC 1 cut(s) 132
TspDTI ATGAA 6 cut(s) 50, 596, 614, 693, 1212, 1407
TspGWI ACGGA 1 cut(s) 338
TspRI CASTG 1 cut(s) 775
XapI RAATTY 2 cut(s) 326, 689
XceI RCATGY 2 cut(s) 706, 763
XcmI CCANNNNNNNNNTGG 1 cut(s) 1105
XmiI GTMKAC 1 cut(s) 352
XspI CTAG 3 cut(s) 831, 915, 1400
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.