Rroxscaffold_2G00088460

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0013453
Physical Location & Seq
Forward (+)
10384295 .. 10385470
1176 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00088460.1

Sequence Viewer

Length: 1176 bp
ATGCAAGCCTCACTCGCTCTCCCTCTCGACGCCCACGTCTTCTCTCTCGTCCTCAAGTCCTGCTCCGCCGTCCGCCGCCCCCAAATCGGCGCCGCCGTCCACGCCCAAGTCACCAAATCGTCGTTCCTATCAAACCCTTTTGTGGCCTGCGCTCTCGTTGACATGTACGGCAAATGCGTCTCGCTTTGGGCTGCACGCCAGTTGTTCGATGAAATTCCTCACAGAAATGTTGTTGTGTGGAATGCCATGATTTCGGTTTGTACCCGCAATGCTGATGTTGCTGAAGCTTTGAGGTTGTTTGAGGCTATGGATGTTGAGCCTGATGTGTCGACTTATAACACCATTATAGCCGGAACGTCGGGGATGGATGATGGGTTGTTTAGGGCTGTGGAGGTGTATAGGAAAATGTGCGAAAGAGGGTGGAAGCCGGATTTGATCACACTTCTTGCTCTGTTACGTGCTTGTGTTGGTGTAGCAGCTTTTAGGTTTATTAAGGAAATTCACGGTTATGATGTAAGGAATGGGATTGACTCGCATTCGCAGTTGAGTAGCGGTTTAGTAGAGGCCTATGGGCGTTGTGGTTGTCTCGAAAATGCGCATAGTGTGTTCCGAGGTTTGAAGCAGAAGGATGTGGTTGCGTGGAGCAGTTTGATATCAGTGTATGCGGTTCATGGGGAGGCAAGAGCTGCATTTGATGTATTTAGAGAAATGGAATCGGCGAAAGTGGTGCCTGATGAGATTACTTTTCTTGCGGTACTGAAAGCGTGTAGCCATGCTGAAGGATTAGCTGATGAAGCACTGAGTTATATTAATTGTATGCGTAATTATGGCGTGCAACCAAACAGTGATCACTATTCTTGTTTAGTAGATGTTTTGAGCAGAGCAGGGAGGTTATGCGAGGCGTATGAGATCGTAAAGAAGATGCCAGTGAAGGTGACTGCTAGAGCTTGGGGTGCCCTTCTTTCGGGGTGTAGAACTTATGGAAACCTGGAGCTTGCGGAGATAGCAGGGAAAGCTTTGTCCGAACTTGAGCCCGATAATCCTTCCCATTATTTATTGTTGTCAACGATTTATGTTGGCTTAGGAAGGCATGATGAAGCTCAGAGAATGAGAAGGGAAATGAGGCAGAAAGGTGTGAAGGCACCGGTTGGAAGTAGTTGGATGGTTCAAGAGTGA

Protein Analysis

391

Amino Acids

43.07

Weight (kDa)

6.83

Isoelectric Point (pI)

34.87

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 75 - 118 7.6e-10 PPR repeat family
PPR_2 PF13041 107 - 156 3.2e-07 PPR repeat family
PPR_3 PF13812 208 - 256 7.4e-07 Pentatricopeptide repeat domain
PPR_2 PF13041 209 - 257 1.1e-10 PPR repeat family
PPR PF01535 212 - 240 6.6e-06 PPR repeat
TPR_24 PF23276 220 - 331 1.7e-06 Fungal tetratrico peptide repeats
PPR_long PF17177 226 - 320 7e-09 Pentacotripeptide-repeat region of PRORP
E_motif PF20431 327 - 388 1.6e-13 E motif
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: OG0013453)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G03510
fragaria_vesca FvH4_6g44770
malus_domestica MD09G1093700.v1.1 MD17G1083400.v1.1
prunus_persica Prupe.3G231700_v2.0.a1
pyrus_communis pycom09g01890 pycom17g08120
rosa_chinensis RchiOBHm_Chr2g0161921
rosa_laevigata RLG00000021307
rosa_multiflora Rmu_sc0008565.1_g000004 Rmu_sc0018381.1_g000006
rosa_roxburghii Rroxscaffold_2G00088460
rosa_rugosa Rorug02G0493200
rosa_samantha Rh2AG559100 Rh2BG572500 Rh2CG542800 Rh2DG582300
rosa_wichuraiana Rw2G046280

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 336
AasI GACNNNNNNGTC 1 cut(s) 35
Acc16I TGCGCA 1 cut(s) 597
AccB1I GGYRCC 4 cut(s) 89, 727, 953, 1141
AccI GTMKAC 1 cut(s) 329
AciI CCGC 9 cut(s) 66, 73, 76, 93, 265, 552, 665, 752, 998
AcsI RAATTY 2 cut(s) 213, 498
AcuI CTGAAG 2 cut(s) 303, 798
AcyI GRCGYC 2 cut(s) 30, 90
AfaI GTAC 3 cut(s) 167, 262, 756
AfiI CCNNNNNNNGG 3 cut(s) 86, 142, 964
AflIII ACRYGT 1 cut(s) 162
AgeI ACCGGT 1 cut(s) 1144
AgsI TTSAA 2 cut(s) 619, 1169
AjiI CACGTC 1 cut(s) 37
AjnI CCWGG 1 cut(s) 987
AjuI GAANNNNNNNTTGG 2 cut(s) 107, 139
AluBI AGCT 8 cut(s) 287, 479, 686, 788, 947, 994, 1016, 1100
AluI AGCT 8 cut(s) 287, 479, 686, 788, 947, 994, 1016, 1100
Alw26I GTCTC 2 cut(s) 184, 590
AoxI GGCC 2 cut(s) 144, 564
ApeKI GCWGC 3 cut(s) 191, 476, 686
ApoI RAATTY 2 cut(s) 213, 498
AseI ATTAAT 1 cut(s) 810
AsiGI ACCGGT 1 cut(s) 1144
AspLEI GCGC 3 cut(s) 92, 152, 598
AsuHPI GGTGA 2 cut(s) 103, 946
BaeGI GKGCMC 1 cut(s) 958
BanI GGYRCC 4 cut(s) 89, 727, 953, 1141
BanII GRGCYC 1 cut(s) 1035
BbsI GAAGAC 1 cut(s) 31
BbvI GCAGC 3 cut(s) 178, 488, 673
BccI CCATC 3 cut(s) 358, 365, 1156
BceAI ACGGC 3 cut(s) 53, 80, 184
BcgI CGANNNNNNTGC 2 cut(s) 709, 743
BciT130I CCWGG 1 cut(s) 989
BclI TGATCA 2 cut(s) 435, 847
BcoDI GTCTC 2 cut(s) 184, 590
BfaI CTAG 1 cut(s) 942
BfoI RGCGCY 1 cut(s) 93
BisI GCNGC 5 cut(s) 76, 93, 192, 477, 687
BlsI GCNGC 5 cut(s) 77, 94, 193, 478, 688
Bme1390I CCNGG 1 cut(s) 989
BmgBI CACGTC 1 cut(s) 37
BmiI GGNNCC 4 cut(s) 91, 729, 955, 1143
BmrFI CCNGG 1 cut(s) 989
BmsI GCATC 1 cut(s) 912
BpiI GAAGAC 1 cut(s) 31
BpmI CTGGAG 1 cut(s) 1010
Bpu10I CCTNAGC 1 cut(s) 1081
BpuEI CTTGAG 2 cut(s) 38, 1049
BsaAI YACGTR 1 cut(s) 458
BsaHI GRCGYC 2 cut(s) 30, 90
BsaJI CCNNGG 1 cut(s) 610
BsaWI WCCGGW 1 cut(s) 1144
BsaXI ACNNNNNCTCC 1 cut(s) 33
Bsc4I CCNNNNNNNGG 3 cut(s) 86, 142, 964
Bse118I RCCGGY 1 cut(s) 1144
Bse1I ACTGG 2 cut(s) 199, 926
Bse3DI GCAATG 1 cut(s) 274
BseBI CCWGG 1 cut(s) 989
BseDI CCNNGG 1 cut(s) 610
BseGI GGATG 5 cut(s) 316, 369, 373, 634, 1167
BseLI CCNNNNNNNGG 3 cut(s) 86, 142, 964
BseMI GCAATG 1 cut(s) 274
BseMII CTCAG 2 cut(s) 791, 1115
BseNI ACTGG 2 cut(s) 199, 926
BseSI GKGCMC 1 cut(s) 958
BseXI GCAGC 3 cut(s) 178, 488, 673
BsgI GTGCAG 1 cut(s) 177
BshFI GGCC 2 cut(s) 146, 566
BshNI GGYRCC 4 cut(s) 89, 727, 953, 1141
BshTI ACCGGT 1 cut(s) 1144
BsiSI CCGG 3 cut(s) 351, 428, 1145
BslI CCNNNNNNNGG 3 cut(s) 86, 142, 964
BsmAI GTCTC 2 cut(s) 184, 590
BsmBI CGTCTC 1 cut(s) 184
BsmI GAATGC 2 cut(s) 247, 535
BsnI GGCC 2 cut(s) 146, 566
Bsp1286I GDGCHC 2 cut(s) 958, 1035
Bsp143I GATC 3 cut(s) 435, 847, 909
BspACI CCGC 9 cut(s) 66, 73, 76, 93, 265, 552, 665, 752, 998
BspANI GGCC 2 cut(s) 146, 566
BspCNI CTCAG 2 cut(s) 792, 1114
BspLI GGNNCC 4 cut(s) 91, 729, 955, 1143
BspT107I GGYRCC 4 cut(s) 89, 727, 953, 1141
BsrDI GCAATG 1 cut(s) 274
BsrFI RCCGGY 1 cut(s) 1144
BsrI ACTGG 2 cut(s) 199, 926
BssAI RCCGGY 1 cut(s) 1144
BssECI CCNNGG 1 cut(s) 610
BssMI GATC 3 cut(s) 435, 847, 909
BssNI GRCGYC 2 cut(s) 30, 90
Bst2UI CCWGG 1 cut(s) 989
Bst4CI ACNGT 2 cut(s) 506, 845
BstACI GRCGYC 2 cut(s) 30, 90
BstAPI GCANNNNNTGC 1 cut(s) 686
BstBAI YACGTR 1 cut(s) 458
BstC8I GCNNGC 5 cut(s) 6, 148, 196, 833, 996
BstDEI CTNAG 3 cut(s) 800, 1081, 1101
BstF5I GGATG 5 cut(s) 316, 369, 373, 634, 1167
BstH2I RGCGCY 1 cut(s) 93
BstHHI GCGC 3 cut(s) 92, 152, 598
BstKTI GATC 3 cut(s) 438, 850, 912
BstMAI GTCTC 2 cut(s) 184, 590
BstMBI GATC 3 cut(s) 435, 847, 909
BstMWI GCNNNNNNNGC 8 cut(s) 14, 101, 278, 686, 794, 953, 1004, 1013
BstNI CCWGG 1 cut(s) 989
BstNSI RCATGY 1 cut(s) 166
BstSCI CCNGG 1 cut(s) 987
BstSLI GKGCMC 1 cut(s) 958
BstV1I GCAGC 3 cut(s) 178, 488, 673
BstV2I GAAGAC 1 cut(s) 31
BsuRI GGCC 2 cut(s) 146, 566
BtrI CACGTC 1 cut(s) 37
BtsCI GGATG 5 cut(s) 316, 369, 373, 634, 1167
BtsIMutI CAGTG 4 cut(s) 663, 797, 850, 933
Cac8I GCNNGC 5 cut(s) 6, 148, 196, 833, 996
CfoI GCGC 3 cut(s) 92, 152, 598
Cfr10I RCCGGY 1 cut(s) 1144
CseI GACGC 2 cut(s) 38, 166
Csp6I GTAC 3 cut(s) 166, 261, 755
CspAI ACCGGT 1 cut(s) 1144
CviAII CATG 5 cut(s) 163, 247, 671, 773, 1091
CviQI GTAC 3 cut(s) 166, 261, 755
DdeI CTNAG 3 cut(s) 800, 1081, 1101
DinI GGCGCC 1 cut(s) 91
DpnI GATC 3 cut(s) 437, 849, 911
DpnII GATC 3 cut(s) 435, 847, 909
DrdI GACNNNNNNGTC 1 cut(s) 35
DseDI GACNNNNNNGTC 1 cut(s) 35
EciI GGCGGA 2 cut(s) 55, 62
Eco147I AGGCCT 1 cut(s) 566
Eco24I GRGCYC 1 cut(s) 1035
Eco32I GATATC 1 cut(s) 654
Eco57I CTGAAG 2 cut(s) 303, 798
EcoRII CCWGG 1 cut(s) 987
EcoRV GATATC 1 cut(s) 654
EcoT38I GRGCYC 1 cut(s) 1035
EgeI GGCGCC 1 cut(s) 91
EheI GGCGCC 1 cut(s) 91
Esp3I CGTCTC 1 cut(s) 184
FaeI CATG 5 cut(s) 166, 250, 674, 776, 1094
FatI CATG 5 cut(s) 162, 246, 670, 772, 1090
FauI CCCGC 1 cut(s) 272
FbaI TGATCA 2 cut(s) 435, 847
FblI GTMKAC 1 cut(s) 329
Fnu4HI GCNGC 5 cut(s) 76, 93, 192, 477, 687
FokI GGATG 4 cut(s) 323, 376, 380, 641
FriOI GRGCYC 1 cut(s) 1035
Fsp4HI GCNGC 5 cut(s) 76, 93, 192, 477, 687
FspAI RTGCGCAY 1 cut(s) 597
FspBI CTAG 1 cut(s) 942
FspI TGCGCA 1 cut(s) 597
GlaI GCGC 3 cut(s) 91, 151, 597
GluI GCNGC 5 cut(s) 76, 93, 192, 477, 687
GsuI CTGGAG 1 cut(s) 1010
HaeII RGCGCY 1 cut(s) 93
HaeIII GGCC 2 cut(s) 146, 566
HapII CCGG 3 cut(s) 351, 428, 1145
HgaI GACGC 2 cut(s) 38, 166
HhaI GCGC 3 cut(s) 92, 152, 598
Hin1I GRCGYC 2 cut(s) 30, 90
Hin1II CATG 5 cut(s) 166, 250, 674, 776, 1094
Hin6I GCGC 3 cut(s) 90, 150, 596
HinP1I GCGC 3 cut(s) 90, 150, 596
HincII GTYRAC 3 cut(s) 160, 330, 1065
HindII GTYRAC 3 cut(s) 160, 330, 1065
HindIII AAGCTT 2 cut(s) 285, 1014
HinfI GANTC 2 cut(s) 530, 713
HpaII CCGG 3 cut(s) 351, 428, 1145
HphI GGTGA 2 cut(s) 103, 946
Hpy166II GTNNAC 4 cut(s) 100, 160, 330, 1065
Hpy188I TCNGA 3 cut(s) 611, 1024, 1104
Hpy188III TCNNGA 3 cut(s) 26, 587, 1169
Hpy8I GTNNAC 4 cut(s) 100, 160, 330, 1065
Hpy99I CGWCG 3 cut(s) 32, 124, 361
HpyAV CCTTC 8 cut(s) 619, 773, 925, 968, 1053, 1080, 1107, 1132
HpyCH4III ACNGT 2 cut(s) 506, 845
HpyCH4IV ACGT 3 cut(s) 36, 356, 457
HpyCH4V TGCA 4 cut(s) 4, 194, 689, 835
HpyF10VI GCNNNNNNNGC 8 cut(s) 14, 101, 278, 686, 794, 953, 1004, 1013
HpyF3I CTNAG 3 cut(s) 800, 1081, 1101
HpySE526I ACGT 3 cut(s) 36, 356, 457
Hsp92I GRCGYC 2 cut(s) 30, 90
Hsp92II CATG 5 cut(s) 166, 250, 674, 776, 1094
HspAI GCGC 3 cut(s) 90, 150, 596
KasI GGCGCC 1 cut(s) 89
Ksp22I TGATCA 2 cut(s) 435, 847
Kzo9I GATC 3 cut(s) 435, 847, 909
LmnI GCTCC 3 cut(s) 68, 642, 991
Lsp1109I GCAGC 3 cut(s) 178, 488, 673
LweI GCATC 1 cut(s) 912
MaeI CTAG 1 cut(s) 942
MaeII ACGT 3 cut(s) 36, 356, 457
MaeIII GTNAC 3 cut(s) 109, 453, 934
MalI GATC 3 cut(s) 437, 849, 911
MboI GATC 3 cut(s) 435, 847, 909
MboII GAAGA 2 cut(s) 31, 931
MhlI GDGCHC 2 cut(s) 958, 1035
MluCI AATT 4 cut(s) 213, 498, 811, 823
Mly113I GGCGCC 1 cut(s) 90
MlyI GAGTC 1 cut(s) 524
MmeI TCCRAC 2 cut(s) 1129, 1139
MseI TTAA 2 cut(s) 492, 810
MslI CAYNNNNRTG 2 cut(s) 225, 507
MspI CCGG 3 cut(s) 351, 428, 1145
MspR9I CCNGG 1 cut(s) 989
Mva1269I GAATGC 2 cut(s) 247, 535
MvaI CCWGG 1 cut(s) 989
MwoI GCNNNNNNNGC 8 cut(s) 14, 101, 278, 686, 794, 953, 1004, 1013
NarI GGCGCC 1 cut(s) 90
NdeII GATC 3 cut(s) 435, 847, 909
NlaIII CATG 5 cut(s) 166, 250, 674, 776, 1094
NlaIV GGNNCC 4 cut(s) 91, 729, 955, 1143
NmuCI GTSAC 2 cut(s) 109, 934
NsbI TGCGCA 1 cut(s) 597
NspI RCATGY 1 cut(s) 166
PceI AGGCCT 1 cut(s) 566
PciI ACATGT 1 cut(s) 162
PcsI WCGNNNNNNNCGW 3 cut(s) 33, 93, 174
PctI GAATGC 2 cut(s) 247, 535
PfeI GAWTC 1 cut(s) 713
PinAI ACCGGT 1 cut(s) 1144
PkrI GCNGC 5 cut(s) 77, 94, 193, 478, 688
PleI GAGTC 1 cut(s) 524
PluTI GGCGCC 1 cut(s) 93
PpsI GAGTC 1 cut(s) 524
Ppu21I YACGTR 1 cut(s) 458
PscI ACATGT 1 cut(s) 162
PshBI ATTAAT 1 cut(s) 810
PsiI TTATAA 1 cut(s) 336
Psp6I CCWGG 1 cut(s) 987
PspGI CCWGG 1 cut(s) 987
PspN4I GGNNCC 4 cut(s) 91, 729, 955, 1143
RsaI GTAC 3 cut(s) 167, 262, 756
RsaNI GTAC 3 cut(s) 166, 261, 755
RseI CAYNNNNRTG 2 cut(s) 225, 507
SalI GTCGAC 1 cut(s) 328
SaqAI TTAA 2 cut(s) 492, 810
SatI GCNGC 5 cut(s) 76, 93, 192, 477, 687
Sau3AI GATC 3 cut(s) 435, 847, 909
SchI GAGTC 1 cut(s) 524
ScrFI CCNGG 1 cut(s) 989
SduI GDGCHC 2 cut(s) 958, 1035
SfaNI GCATC 1 cut(s) 912
SfoI GGCGCC 1 cut(s) 91
SmiMI CAYNNNNRTG 2 cut(s) 225, 507
SmlI CTYRAG 2 cut(s) 53, 1028
SmoI CTYRAG 2 cut(s) 53, 1028
Sse9I AATT 4 cut(s) 213, 498, 811, 823
SseBI AGGCCT 1 cut(s) 566
SsiI CCGC 9 cut(s) 66, 73, 76, 93, 265, 552, 665, 752, 998
SspDI GGCGCC 1 cut(s) 89
SspMI CTAG 1 cut(s) 942
StuI AGGCCT 1 cut(s) 566
StyD4I CCNGG 1 cut(s) 987
TaaI ACNGT 2 cut(s) 506, 845
TaiI ACGT 3 cut(s) 39, 359, 460
TaqI TCGA 4 cut(s) 27, 207, 329, 588
TasI AATT 4 cut(s) 213, 498, 811, 823
TauI GCSGC 2 cut(s) 78, 95
TfiI GAWTC 1 cut(s) 713
Tru1I TTAA 2 cut(s) 492, 810
Tru9I TTAA 2 cut(s) 492, 810
TscAI CASTG 4 cut(s) 663, 804, 850, 933
TseFI GTSAC 2 cut(s) 109, 934
TseI GCWGC 3 cut(s) 191, 476, 686
Tsp45I GTSAC 2 cut(s) 109, 934
TspDTI ATGAA 4 cut(s) 225, 659, 807, 1110
TspRI CASTG 4 cut(s) 663, 804, 850, 933
VspI ATTAAT 1 cut(s) 810
XapI RAATTY 2 cut(s) 213, 498
XceI RCATGY 1 cut(s) 166
XmiI GTMKAC 1 cut(s) 329
XspI CTAG 1 cut(s) 942
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.