Rroxscaffold_1G00066980

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0012592
Physical Location & Seq
Forward (+)
88406063 .. 88408885
2823 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00066980.1

Sequence Viewer

Length: 1557 bp
ATGGAAGTCCATGCCCACTTAATCAGATTCGGGTTGTCCCAAGACTCGAGCTTTCGGAACCATTTGATCAATTTCTATGCAAAAAGCAGGTTTTTTGGGCATGCCCGGAAGCTGATCGATGAAAGTCCTGAACCAGATTTGGTTGCTTGGTCTGCTTTGATTTCTGGGTATGCCCAAAATGGGCTTGGTAGAGAAGCCATTTCAGCTTTTCATGAGATGCATGGATTGGGGGTGAAGTGTAATGAGTTTACATTTCCAAGTGTGCTCAAGGCTTGCTCTAGTTCTAAAGATTTGAGGCTGGGAAAGCAGGTTCATGGGGTGGTGTTGGTTACCGGGTTTGAGTCCGATGAGTTTGTTGCGAATACTTTGGTTGTTATGTATTCGAAATGTGGGGAGTTTGGGGATTCCAGGAGGTTGTTTGATGCAATTCCGGAGAGGAATGTTGTTTCGTGGAATGCGTTGTTTTCGTGTTATGTGCAGAGTGATTTCTTTGGGGAGGCAATGGATTTGTTTGAGGAAATGGTTGTGAGTGGAATAAGGCCTAATGAGTATAGTCTGTCTAGTATAATAAATGCTTGTACTGGGTTGGGGGATGGTAGAAGAGGAAGGAAAATTCATGGATATATAGTTAAGCTTGGGTATGATTCGGATTCTTTCTCAGCCAATGCGCTTGTTGACATGTATGCAAAAGCCAAAGGTCTTGAAGATGCAATTTCAGTTTTTGAGAAAATTGCACAACCAGATATTGTATCCTGGAATGCTGTTATTGCTGGTTGTGTTCTTCACAACTGCCATGGTCAGGCGCTCAAATTGTTCAGGGAACTGAGAGGGTCAGGAATCTGTCCAAACATGTTTACATTATCAAGTGCACTTAAAGCTTGTGCTGGGATGGGGTTCGAGAAATTGGGTATGCAGTTGCACTCTTTCTTGATAAAGATGGATACAGAATCAGATTCATATGTCAAAGTTGGACTGATAGATATGTATTGCAAGTGTCAGATGATGACTGATGCAAGGGTGCTTTTTAATATGATGCCAAAGAAAGACATGATTGCATGGAACGCTGTTATCTCTGGTCATTCACAGATGGCTGAAGACAGAGAAGCTGTAACCCTCTTTCCTGAAATGCATAGGGAAGGAACAGGATTCAATGAGACTACTTTGTCTACAGTCCTCAAATCAACCGCGAGCTTGCAGGCAGTAAAAGTTTGTGAACAAGTTCACGCTCTTTCGATCAAAACAGGTTTTCAGTCTGACATGTATGTTATAAATAGCCTTCTTGATGCATATGGAAAATGTGGCCAAGTAGAAAATGCAGTAAGAATTTTTGAAGAATGCAAAACTGAAGATTTGGTGGCTTTCACATCAATGATCACTGCCTATGCTCAATATGAACAAGGCGAAGAAGCTCTTAAACTCTATGTGCAAATGCTAATGAAGGGGAACAAGCCTGATTCATTTGTATGTAGTTCTCTTCTGAATGCTTGTGCAAATTTGTCGGCATATGAGCAAGGGAAGCAGATTCATGTTCATATTCTGAAGCCTATGCAAGTGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DYW_deaminase PPR PPR_2

Protein Analysis

518

Amino Acids

57.43

Weight (kDa)

5.99

Isoelectric Point (pI)

39.3

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 45 - 93 2.9e-10 PPR repeat family
PPR PF01535 48 - 78 2.2e-07 PPR repeat
PPR_2 PF13041 146 - 193 2.9e-12 PPR repeat family
PPR PF01535 149 - 179 2.8e-07 PPR repeat
PPR_2 PF13041 247 - 295 1.3e-09 PPR repeat family
PPR_2 PF13041 450 - 498 3.7e-10 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1268
AasI GACNNNNNNGTC 1 cut(s) 1162
Acc36I ACCTGC 2 cut(s) 78, 298
AccI GTMKAC 1 cut(s) 1166
AccII CGCG 1 cut(s) 1187
AccIII TCCGGA 1 cut(s) 430
AciI CCGC 1 cut(s) 1185
AcoI YGGCCR 1 cut(s) 1300
AcsI RAATTY 3 cut(s) 612, 1323, 1492
AcuI CTGAAG 2 cut(s) 1113, 1365
AfaI GTAC 1 cut(s) 580
AfiI CCNNNNNNNGG 2 cut(s) 180, 799
AflIII ACRYGT 3 cut(s) 678, 849, 1257
AgsI TTSAA 3 cut(s) 704, 1150, 1331
AjnI CCWGG 2 cut(s) 407, 752
AloI GAACNNNNNNTCC 2 cut(s) 294, 326
AluBI AGCT 8 cut(s) 51, 112, 206, 634, 878, 1106, 1191, 1409
AluI AGCT 8 cut(s) 51, 112, 206, 634, 878, 1106, 1191, 1409
Alw21I GWGCWC 2 cut(s) 267, 871
Alw26I GTCTC 1 cut(s) 1148
Alw44I GTGCAC 1 cut(s) 867
Ama87I CYCGRG 1 cut(s) 46
Aor13HI TCCGGA 1 cut(s) 430
AoxI GGCC 2 cut(s) 539, 1300
ApaLI GTGCAC 1 cut(s) 867
ApoI RAATTY 3 cut(s) 612, 1323, 1492
Asp700I GAANNNNTTC 1 cut(s) 1218
AspLEI GCGC 2 cut(s) 670, 805
AsuC2I CCSGG 2 cut(s) 106, 334
AsuHPI GGTGA 1 cut(s) 244
AsuII TTCGAA 1 cut(s) 383
AvaI CYCGRG 1 cut(s) 46
BaeGI GKGCMC 1 cut(s) 871
BalI TGGCCA 1 cut(s) 1302
BbsI GAAGAC 1 cut(s) 1101
Bbv12I GWGCWC 2 cut(s) 267, 871
BccI CCATC 4 cut(s) 587, 883, 931, 1081
BcgI CGANNNNNNTGC 2 cut(s) 1479, 1513
BciT130I CCWGG 2 cut(s) 409, 754
BciVI GTATCC 2 cut(s) 760, 934
BclI TGATCA 2 cut(s) 66, 1371
BcnI CCSGG 2 cut(s) 106, 334
BcoDI GTCTC 1 cut(s) 1148
BfaI CTAG 2 cut(s) 279, 561
BfmI CTRYAG 1 cut(s) 1167
BfoI RGCGCY 1 cut(s) 806
BfuAI ACCTGC 2 cut(s) 78, 298
BfuI GTATCC 2 cut(s) 760, 934
Bme1390I CCNGG 4 cut(s) 106, 334, 409, 754
BmeT110I CYCGRG 1 cut(s) 46
BmiI GGNNCC 1 cut(s) 59
BmrFI CCNGG 4 cut(s) 106, 334, 409, 754
BmrI ACTGGG 1 cut(s) 591
BmsI GCATC 6 cut(s) 207, 412, 697, 1000, 1023, 1273
BmuI ACTGGG 1 cut(s) 591
BpiI GAAGAC 1 cut(s) 1101
Bpu14I TTCGAA 1 cut(s) 383
BpuEI CTTGAG 1 cut(s) 251
BpuMI CCSGG 2 cut(s) 106, 334
Bsa29I ATCGAT 1 cut(s) 117
BsaJI CCNNGG 1 cut(s) 793
BsaWI WCCGGW 1 cut(s) 430
Bsc4I CCNNNNNNNGG 2 cut(s) 180, 799
Bse1I ACTGG 1 cut(s) 586
Bse3DI GCAATG 1 cut(s) 507
BseAI TCCGGA 1 cut(s) 430
BseBI CCWGG 2 cut(s) 409, 754
BseCI ATCGAT 1 cut(s) 117
BseDI CCNNGG 1 cut(s) 793
BseGI GGATG 2 cut(s) 598, 894
BseLI CCNNNNNNNGG 2 cut(s) 180, 799
BseMI GCAATG 1 cut(s) 507
BseMII CTCAG 2 cut(s) 672, 815
BseNI ACTGG 1 cut(s) 586
BseSI GKGCMC 1 cut(s) 871
BseYI CCCAGC 2 cut(s) 298, 884
BsgI GTGCAG 1 cut(s) 497
Bsh1236I CGCG 1 cut(s) 1187
BshFI GGCC 2 cut(s) 541, 1302
BshVI ATCGAT 1 cut(s) 117
BsiHKAI GWGCWC 2 cut(s) 267, 871
BsiHKCI CYCGRG 1 cut(s) 46
BsiSI CCGG 3 cut(s) 106, 333, 431
BslFI GGGAC 1 cut(s) 22
BslI CCNNNNNNNGG 2 cut(s) 180, 799
BsmAI GTCTC 1 cut(s) 1148
BsmFI GGGAC 1 cut(s) 22
BsmI GAATGC 4 cut(s) 460, 763, 1340, 1486
BsnI GGCC 2 cut(s) 541, 1302
BsoBI CYCGRG 1 cut(s) 46
Bsp119I TTCGAA 1 cut(s) 383
Bsp1286I GDGCHC 2 cut(s) 267, 871
Bsp13I TCCGGA 1 cut(s) 430
Bsp143I GATC 4 cut(s) 66, 114, 1233, 1371
Bsp19I CCATGG 1 cut(s) 793
BspACI CCGC 1 cut(s) 1185
BspANI GGCC 2 cut(s) 541, 1302
BspCNI CTCAG 2 cut(s) 671, 816
BspDI ATCGAT 1 cut(s) 117
BspEI TCCGGA 1 cut(s) 430
BspFNI CGCG 1 cut(s) 1187
BspHI TCATGA 1 cut(s) 211
BspLI GGNNCC 1 cut(s) 59
BspMI ACCTGC 2 cut(s) 78, 298
BspT104I TTCGAA 1 cut(s) 383
BsrDI GCAATG 1 cut(s) 507
BsrI ACTGG 1 cut(s) 586
BssECI CCNNGG 1 cut(s) 793
BssMI GATC 4 cut(s) 66, 114, 1233, 1371
BssT1I CCWWGG 1 cut(s) 793
Bst2UI CCWGG 2 cut(s) 409, 754
Bst4CI ACNGT 1 cut(s) 1171
Bst6I CTCTTC 2 cut(s) 595, 1479
BstBI TTCGAA 1 cut(s) 383
BstC8I GCNNGC 5 cut(s) 102, 274, 1189, 1193, 1197
BstDEI CTNAG 2 cut(s) 658, 824
BstDSI CCRYGG 1 cut(s) 793
BstEII GGTNACC 1 cut(s) 328
BstF5I GGATG 2 cut(s) 598, 894
BstFNI CGCG 1 cut(s) 1187
BstH2I RGCGCY 1 cut(s) 806
BstHHI GCGC 2 cut(s) 670, 805
BstKTI GATC 4 cut(s) 69, 117, 1236, 1374
BstMAI GTCTC 1 cut(s) 1148
BstMBI GATC 4 cut(s) 66, 114, 1233, 1371
BstMWI GCNNNNNNNGC 7 cut(s) 152, 203, 304, 767, 875, 1061, 1516
BstNI CCWGG 2 cut(s) 409, 754
BstNSI RCATGY 4 cut(s) 104, 682, 853, 1261
BstPI GGTNACC 1 cut(s) 328
BstSCI CCNGG 4 cut(s) 104, 332, 407, 752
BstSFI CTRYAG 1 cut(s) 1167
BstSLI GKGCMC 1 cut(s) 871
BstUI CGCG 1 cut(s) 1187
BstV2I GAAGAC 1 cut(s) 1101
Bsu15I ATCGAT 1 cut(s) 117
BsuI GTATCC 2 cut(s) 760, 934
BsuRI GGCC 2 cut(s) 541, 1302
BsuTUI ATCGAT 1 cut(s) 117
BtgI CCRYGG 1 cut(s) 793
BtsCI GGATG 2 cut(s) 598, 894
BtsI GCAGTG 1 cut(s) 1374
BtsIMutI CAGTG 1 cut(s) 1374
BveI ACCTGC 2 cut(s) 78, 298
Cac8I GCNNGC 5 cut(s) 102, 274, 1189, 1193, 1197
CciI TCATGA 1 cut(s) 211
CfoI GCGC 2 cut(s) 670, 805
ClaI ATCGAT 1 cut(s) 117
Csp6I GTAC 1 cut(s) 579
CviQI GTAC 1 cut(s) 579
DdeI CTNAG 2 cut(s) 658, 824
DpnI GATC 4 cut(s) 68, 116, 1235, 1373
DpnII GATC 4 cut(s) 66, 114, 1233, 1371
DrdI GACNNNNNNGTC 1 cut(s) 1162
DseDI GACNNNNNNGTC 1 cut(s) 1162
EaeI YGGCCR 1 cut(s) 1300
Eam1104I CTCTTC 2 cut(s) 595, 1479
EarI CTCTTC 2 cut(s) 595, 1479
Eco130I CCWWGG 1 cut(s) 793
Eco147I AGGCCT 1 cut(s) 541
Eco57I CTGAAG 2 cut(s) 1113, 1365
Eco88I CYCGRG 1 cut(s) 46
Eco91I GGTNACC 1 cut(s) 328
EcoO65I GGTNACC 1 cut(s) 328
EcoRII CCWGG 2 cut(s) 407, 752
EcoT14I CCWWGG 1 cut(s) 793
EcoT22I ATGCAT 3 cut(s) 222, 1131, 1288
ErhI CCWWGG 1 cut(s) 793
FalI AAGNNNNNCTT 2 cut(s) 1395, 1427
FaqI GGGAC 1 cut(s) 22
FauNDI CATATG 3 cut(s) 958, 1288, 1504
FbaI TGATCA 2 cut(s) 66, 1371
FblI GTMKAC 1 cut(s) 1166
FokI GGATG 2 cut(s) 605, 901
FspBI CTAG 2 cut(s) 279, 561
GlaI GCGC 2 cut(s) 669, 804
GsaI CCCAGC 2 cut(s) 302, 888
HaeII RGCGCY 1 cut(s) 806
HaeIII GGCC 2 cut(s) 541, 1302
HapII CCGG 3 cut(s) 106, 333, 431
HhaI GCGC 2 cut(s) 670, 805
Hin6I GCGC 2 cut(s) 668, 803
HinP1I GCGC 2 cut(s) 668, 803
HincII GTYRAC 1 cut(s) 676
HindII GTYRAC 1 cut(s) 676
HindIII AAGCTT 2 cut(s) 632, 876
HpaII CCGG 3 cut(s) 106, 333, 431
HphI GGTGA 1 cut(s) 244
Hpy166II GTNNAC 7 cut(s) 249, 676, 855, 869, 1167, 1214, 1222
Hpy188I TCNGA 9 cut(s) 26, 57, 346, 649, 952, 999, 1255, 1479, 1539
Hpy188III TCNNGA 9 cut(s) 128, 212, 431, 701, 834, 898, 928, 1121, 1280
Hpy8I GTNNAC 7 cut(s) 249, 676, 855, 869, 1167, 1214, 1222
HpyAV CCTTC 4 cut(s) 600, 1130, 1286, 1432
HpyCH4III ACNGT 1 cut(s) 1171
HpyF10VI GCNNNNNNNGC 7 cut(s) 152, 203, 304, 767, 875, 1061, 1516
HpyF3I CTNAG 2 cut(s) 658, 824
HspAI GCGC 2 cut(s) 668, 803
Kpn2I TCCGGA 1 cut(s) 430
Ksp22I TGATCA 2 cut(s) 66, 1371
Kzo9I GATC 4 cut(s) 66, 114, 1233, 1371
LweI GCATC 6 cut(s) 207, 412, 697, 1000, 1023, 1273
MaeI CTAG 2 cut(s) 279, 561
MaeIII GTNAC 2 cut(s) 328, 1108
MalI GATC 4 cut(s) 68, 116, 1235, 1373
MboI GATC 4 cut(s) 66, 114, 1233, 1371
MboII GAAGA 8 cut(s) 612, 716, 773, 1106, 1343, 1358, 1415, 1466
MhlI GDGCHC 2 cut(s) 267, 871
MlsI TGGCCA 1 cut(s) 1302
MluCI AATT 9 cut(s) 70, 426, 612, 711, 729, 809, 902, 1323, 1492
MluNI TGGCCA 1 cut(s) 1302
MlyI GAGTC 2 cut(s) 38, 350
MmeI TCCRAC 1 cut(s) 949
MnlI CCTC 9 cut(s) 288, 405, 429, 490, 508, 596, 821, 1124, 1184
Mox20I TGGCCA 1 cut(s) 1302
Mph1103I ATGCAT 3 cut(s) 222, 1131, 1288
MroI TCCGGA 1 cut(s) 430
MroXI GAANNNNTTC 1 cut(s) 1218
MscI TGGCCA 1 cut(s) 1302
MseI TTAA 5 cut(s) 20, 630, 873, 1026, 1413
MslI CAYNNNNRTG 2 cut(s) 1367, 1462
Msp20I TGGCCA 1 cut(s) 1302
MspI CCGG 3 cut(s) 106, 333, 431
MspR9I CCNGG 4 cut(s) 106, 334, 409, 754
Mva1269I GAATGC 4 cut(s) 460, 763, 1340, 1486
MvaI CCWGG 2 cut(s) 409, 754
MvnI CGCG 1 cut(s) 1187
MwoI GCNNNNNNNGC 7 cut(s) 152, 203, 304, 767, 875, 1061, 1516
NciI CCSGG 2 cut(s) 106, 334
NcoI CCATGG 1 cut(s) 793
NdeI CATATG 3 cut(s) 958, 1288, 1504
NdeII GATC 4 cut(s) 66, 114, 1233, 1371
NlaIV GGNNCC 1 cut(s) 59
NsiI ATGCAT 3 cut(s) 222, 1131, 1288
NspI RCATGY 4 cut(s) 104, 682, 853, 1261
NspV TTCGAA 1 cut(s) 383
PaeI GCATGC 1 cut(s) 104
PaeR7I CTCGAG 1 cut(s) 46
PagI TCATGA 1 cut(s) 211
PceI AGGCCT 1 cut(s) 541
PciI ACATGT 3 cut(s) 678, 849, 1257
PcsI WCGNNNNNNNCGW 1 cut(s) 455
PctI GAATGC 4 cut(s) 460, 763, 1340, 1486
PdmI GAANNNNTTC 1 cut(s) 1218
PfoI TCCNGGA 2 cut(s) 407, 752
PleI GAGTC 2 cut(s) 38, 349
PpsI GAGTC 2 cut(s) 38, 349
PscI ACATGT 3 cut(s) 678, 849, 1257
PsiI TTATAA 1 cut(s) 1268
Psp6I CCWGG 2 cut(s) 407, 752
PspEI GGTNACC 1 cut(s) 328
PspFI CCCAGC 2 cut(s) 298, 884
PspGI CCWGG 2 cut(s) 407, 752
PspN4I GGNNCC 1 cut(s) 59
PspXI VCTCGAGB 1 cut(s) 46
RsaI GTAC 1 cut(s) 580
RsaNI GTAC 1 cut(s) 579
RseI CAYNNNNRTG 2 cut(s) 1367, 1462
SaqAI TTAA 5 cut(s) 20, 630, 873, 1026, 1413
Sau3AI GATC 4 cut(s) 66, 114, 1233, 1371
SchI GAGTC 2 cut(s) 38, 350
ScrFI CCNGG 4 cut(s) 106, 334, 409, 754
SduI GDGCHC 2 cut(s) 267, 871
SfaNI GCATC 6 cut(s) 207, 412, 697, 1000, 1023, 1273
SfcI CTRYAG 1 cut(s) 1167
Sfr274I CTCGAG 1 cut(s) 46
SfuI TTCGAA 1 cut(s) 383
SlaI CTCGAG 1 cut(s) 46
SmiMI CAYNNNNRTG 2 cut(s) 1367, 1462
SmlI CTYRAG 2 cut(s) 46, 266
SmoI CTYRAG 2 cut(s) 46, 266
SphI GCATGC 1 cut(s) 104
Sse9I AATT 9 cut(s) 70, 426, 612, 711, 729, 809, 902, 1323, 1492
SseBI AGGCCT 1 cut(s) 541
SsiI CCGC 1 cut(s) 1185
SspMI CTAG 2 cut(s) 279, 561
StuI AGGCCT 1 cut(s) 541
StyD4I CCNGG 4 cut(s) 104, 332, 407, 752
StyI CCWWGG 1 cut(s) 793
TaaI ACNGT 1 cut(s) 1171
TaqI TCGA 5 cut(s) 47, 117, 383, 897, 1232
TasI AATT 9 cut(s) 70, 426, 612, 711, 729, 809, 902, 1323, 1492
TatI WGTACW 1 cut(s) 578
Tru1I TTAA 5 cut(s) 20, 630, 873, 1026, 1413
Tru9I TTAA 5 cut(s) 20, 630, 873, 1026, 1413
TscAI CASTG 1 cut(s) 1381
TspRI CASTG 1 cut(s) 1381
VneI GTGCAC 1 cut(s) 867
XapI RAATTY 3 cut(s) 612, 1323, 1492
XceI RCATGY 4 cut(s) 104, 682, 853, 1261
XcmI CCANNNNNNNNNTGG 1 cut(s) 182
XhoI CTCGAG 1 cut(s) 46
XmiI GTMKAC 1 cut(s) 1166
XmnI GAANNNNTTC 1 cut(s) 1218
XspI CTAG 2 cut(s) 279, 561
Zsp2I ATGCAT 3 cut(s) 222, 1131, 1288
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.