Rh6DG449000

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0014256
Physical Location & Seq
Reverse (-)
62171980 .. 62177443
5464 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG449000.1

Sequence Viewer

Length: 1287 bp
ATGCAAGCCTTCTCGCCCTCCTTCGCCGTCTGTTCCTATTTTCCGATACGACGCCGTCGCATCACCACCGCCTCTCCCCGCAAATCCAACCTCAAGCGACTCACCTCCCGCGTCGTCCAACTCACTCGCCGACGACAGCTCCACCAGATAATGGAGGAGATAGAGATCGCTAGAGAACGGTACGGGAAGCTGAACACGATAGTGATGAACGCGGTGGTGAAGGCGTGTGTCCATTGCGGCGACATCGACTCTGCACTTAAGGTGTTCGACGAAATGTCTAAGCCGGGGAGCTGTGGCGTTGATACTGTCACATATGCTACCCTTTTGAAGGTACTATTTCTCTTTTTTTTTTTTTTTTTTTTGAATTTGGATGCCATGGATTTGATAATGTGTTTTGTTATAAAGGGATTGGGCGGGGCGAGGAGAATCGATGAGGCATTTGAAGTGCTTGAATCCGTCGAACGCGGTGTTGCTGTGGGAAGTCCAAAGTTGTCAGCACCTCTTATTTTTGGACTGCTGAATGCTTTGGTTGAAGCAGGAGATTTACGCCGAGCTAATGGACTTCTTGCACGGTATGGTTTTCTACTTCGAGAAGGTGGCAGTCTTTCGCTCAGAGTCTACAACTTATTAATGAAGGGATGTATTAATTCAGGCCTTCCTCAAGGTGCGATAGACATGCACAACGAATTAATACGTCTAGGGTTGAAGCCTGATAGGCTCACCTATAATACTCTAATATCTGCATGTGTAAAAGCTGGGAAGTTGGATGCCGCAATGCAATACTTTGAGGAAATGAAGGATGAAGCGCAGAAATTTAGTGATGCTGGTCTATTCCCTGATGTCATCACCTATAGTACATTGCTTAAGGGTTTTGGGGATTCCAAAGATATCCTTATGGTTCATAAGATTGTTTCAGAAATGAAAACATATATTGGTTTGTTCATTGATCGAACAGCATATACGGCAGCAGTTGATGCTTTGCTAAATTGTGACGCAATAAAGGGTGCTTTATGTATTTTCGGAGAATTATTAAAGCAGGCTGGTGGAAATCCAGAGTTGCGACCCAAACCTCACCTCTATCTTTCCTTGATGCGTGCCTTTGCTGTTAGAGGAGATTATGACACAGTAAACAGTCTGCATAAGCACATGTGGCTAGATACTGCTGGAACTATCTACCCAATGATTCATGAAGAAGCTGATCATCTTGTAATGGAGTCAGCTTTAAATGACGGGCAGGTACGATATGAACTCCCCTATGGTCTTCTTCAATGGGGTGTTACTGCATAA

Protein Analysis

428

Amino Acids

47.72

Weight (kDa)

8.46

Isoelectric Point (pI)

34.3

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 65 - 112 2.9e-08 PPR repeat family
PPR_2 PF13041 206 - 251 3.2e-10 PPR repeat family
PPR_3 PF13812 229 - 268 1.1e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 234 - 266 6.5e-10 PPR repeat
PPR_2 PF13041 241 - 269 2.3e-07 PPR repeat family
PPR PF01535 241 - 267 1.1e-08 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0014256)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G10690 AT5G10690
fragaria_vesca FvH4_2g36670 FvH4_2g36670
malus_domestica MD08G1128000.v1.1
prunus_persica Prupe.1G459800_v2.0.a1
pyrus_communis pycom08g10700
rosa_chinensis RchiOBHm_Chr6g0305021
rosa_laevigata RLG00000010927
rosa_multiflora Rmu_sc0000061.1_g000039
rosa_roxburghii Rroxscaffold_7G00163250
rosa_rugosa Rorug06G0336800
rosa_samantha Rh6AG448400 Rh6BG452500 Rh6CG462100 Rh6DG449000
rosa_wichuraiana Rw6G039050

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 401
Acc36I ACCTGC 1 cut(s) 1225
AccB7I CCANNNNNTGG 1 cut(s) 151
AccI GTMKAC 1 cut(s) 618
AccII CGCG 3 cut(s) 111, 212, 465
AciI CCGC 8 cut(s) 69, 79, 109, 212, 237, 414, 465, 771
AcsI RAATTY 2 cut(s) 364, 812
AcyI GRCGYC 1 cut(s) 52
AfaI GTAC 4 cut(s) 182, 333, 856, 1239
AfiI CCNNNNNNNGG 2 cut(s) 151, 328
AflII CTTAAG 2 cut(s) 257, 863
AflIII ACRYGT 1 cut(s) 1146
AgsI TTSAA 7 cut(s) 328, 364, 443, 452, 533, 706, 1268
AhdI GACNNNNNGTC 1 cut(s) 274
AleI CACNNNNGTG 1 cut(s) 200
AluBI AGCT 7 cut(s) 139, 190, 291, 554, 755, 1196, 1220
AluI AGCT 7 cut(s) 139, 190, 291, 554, 755, 1196, 1220
AoxI GGCC 1 cut(s) 652
ApeKI GCWGC 1 cut(s) 965
ApoI RAATTY 2 cut(s) 364, 812
AseI ATTAAT 3 cut(s) 629, 645, 689
AspLEI GCGC 1 cut(s) 808
AsuC2I CCSGG 1 cut(s) 285
AsuHPI GGTGA 6 cut(s) 55, 94, 229, 712, 838, 1064
BbsI GAAGAC 1 cut(s) 1253
BbvI GCAGC 1 cut(s) 977
BceAI ACGGC 3 cut(s) 11, 39, 978
BcgI CGANNNNNNTGC 2 cut(s) 658, 692
BclI TGATCA 1 cut(s) 1198
BcnI CCSGG 1 cut(s) 285
BfaI CTAG 3 cut(s) 171, 698, 1154
BfmI CTRYAG 1 cut(s) 850
BfrI CTTAAG 2 cut(s) 257, 863
BfuAI ACCTGC 1 cut(s) 1225
BglI GCCNNNNNGGC 1 cut(s) 715
BisI GCNGC 3 cut(s) 238, 771, 966
BlsI GCNGC 3 cut(s) 239, 772, 967
Bme1390I CCNGG 1 cut(s) 285
BmeRI GACNNNNNGTC 1 cut(s) 274
BmrFI CCNGG 1 cut(s) 285
BmsI GCATC 6 cut(s) 69, 361, 757, 811, 964, 1080
BpiI GAAGAC 1 cut(s) 1253
BpuEI CTTGAG 2 cut(s) 77, 645
BpuMI CCSGG 1 cut(s) 285
Bsa29I ATCGAT 1 cut(s) 429
BsaBI GATNNNNATC 1 cut(s) 164
BsaHI GRCGYC 1 cut(s) 52
BsaJI CCNNGG 2 cut(s) 284, 375
BsaXI ACNNNNNCTCC 4 cut(s) 58, 88, 123, 153
Bsc4I CCNNNNNNNGG 2 cut(s) 151, 328
Bse3DI GCAATG 3 cut(s) 232, 780, 857
Bse8I GATNNNNATC 1 cut(s) 164
BseCI ATCGAT 1 cut(s) 429
BseDI CCNNGG 2 cut(s) 284, 375
BseGI GGATG 4 cut(s) 376, 644, 772, 805
BseJI GATNNNNATC 1 cut(s) 164
BseLI CCNNNNNNNGG 2 cut(s) 151, 328
BseMI GCAATG 3 cut(s) 232, 780, 857
BseMII CTCAG 1 cut(s) 625
BseRI GAGGAG 3 cut(s) 170, 436, 1125
BseXI GCAGC 1 cut(s) 977
BseYI CCCAGC 1 cut(s) 755
BsgI GTGCAG 1 cut(s) 237
Bsh1236I CGCG 3 cut(s) 111, 212, 465
BshFI GGCC 1 cut(s) 654
BshVI ATCGAT 1 cut(s) 429
BsiSI CCGG 1 cut(s) 284
BslI CCNNNNNNNGG 2 cut(s) 151, 328
BsmI GAATGC 1 cut(s) 526
BsnI GGCC 1 cut(s) 654
Bsp143I GATC 3 cut(s) 165, 946, 1198
Bsp19I CCATGG 1 cut(s) 375
BspACI CCGC 8 cut(s) 69, 79, 109, 212, 237, 414, 465, 771
BspANI GGCC 1 cut(s) 654
BspCNI CTCAG 1 cut(s) 624
BspDI ATCGAT 1 cut(s) 429
BspFNI CGCG 3 cut(s) 111, 212, 465
BspHI TCATGA 1 cut(s) 1186
BspMI ACCTGC 1 cut(s) 1225
BspTI CTTAAG 2 cut(s) 257, 863
BsrDI GCAATG 3 cut(s) 232, 780, 857
BssECI CCNNGG 2 cut(s) 284, 375
BssMI GATC 3 cut(s) 165, 946, 1198
BssNI GRCGYC 1 cut(s) 52
BssT1I CCWWGG 1 cut(s) 375
Bst4CI ACNGT 5 cut(s) 180, 307, 573, 1126, 1133
BstACI GRCGYC 1 cut(s) 52
BstAFI CTTAAG 2 cut(s) 257, 863
BstAPI GCANNNNNTGC 1 cut(s) 974
BstC8I GCNNGC 3 cut(s) 6, 1038, 1095
BstDEI CTNAG 2 cut(s) 279, 611
BstDSI CCRYGG 1 cut(s) 375
BstENI CCTNNNNNAGG 1 cut(s) 326
BstF5I GGATG 4 cut(s) 376, 644, 772, 805
BstFNI CGCG 3 cut(s) 111, 212, 465
BstHHI GCGC 1 cut(s) 808
BstKTI GATC 3 cut(s) 168, 949, 1201
BstMBI GATC 3 cut(s) 165, 946, 1198
BstMWI GCNNNNNNNGC 4 cut(s) 715, 962, 974, 1150
BstNSI RCATGY 3 cut(s) 679, 747, 1150
BstSCI CCNGG 1 cut(s) 283
BstSFI CTRYAG 1 cut(s) 850
BstUI CGCG 3 cut(s) 111, 212, 465
BstV1I GCAGC 1 cut(s) 977
BstV2I GAAGAC 1 cut(s) 1253
Bsu15I ATCGAT 1 cut(s) 429
BsuRI GGCC 1 cut(s) 654
BsuTUI ATCGAT 1 cut(s) 429
BtgI CCRYGG 1 cut(s) 375
BtsCI GGATG 4 cut(s) 376, 644, 772, 805
BveI ACCTGC 1 cut(s) 1225
Cac8I GCNNGC 3 cut(s) 6, 1038, 1095
CciI TCATGA 1 cut(s) 1186
CfoI GCGC 1 cut(s) 808
ClaI ATCGAT 1 cut(s) 429
CseI GACGC 3 cut(s) 60, 100, 1001
Csp6I GTAC 4 cut(s) 181, 332, 855, 1238
CviAII CATG 5 cut(s) 376, 676, 744, 1147, 1187
CviQI GTAC 4 cut(s) 181, 332, 855, 1238
DdeI CTNAG 2 cut(s) 279, 611
DpnI GATC 3 cut(s) 167, 948, 1200
DpnII GATC 3 cut(s) 165, 946, 1198
DraI TTTAAA 1 cut(s) 1224
DriI GACNNNNNGTC 1 cut(s) 274
Eam1105I GACNNNNNGTC 1 cut(s) 274
Eco130I CCWWGG 1 cut(s) 375
Eco147I AGGCCT 1 cut(s) 654
Eco32I GATATC 1 cut(s) 889
EcoNI CCTNNNNNAGG 1 cut(s) 326
EcoRV GATATC 1 cut(s) 889
EcoT14I CCWWGG 1 cut(s) 375
ErhI CCWWGG 1 cut(s) 375
FaeI CATG 5 cut(s) 379, 679, 747, 1150, 1190
FalI AAGNNNNNCTT 2 cut(s) 876, 908
FatI CATG 5 cut(s) 375, 675, 743, 1146, 1186
FauI CCCGC 3 cut(s) 86, 116, 407
FauNDI CATATG 1 cut(s) 313
FbaI TGATCA 1 cut(s) 1198
FblI GTMKAC 1 cut(s) 618
Fnu4HI GCNGC 3 cut(s) 238, 771, 966
FokI GGATG 4 cut(s) 383, 651, 779, 812
Fsp4HI GCNGC 3 cut(s) 238, 771, 966
FspBI CTAG 3 cut(s) 171, 698, 1154
GlaI GCGC 1 cut(s) 807
GluI GCNGC 3 cut(s) 238, 771, 966
GsaI CCCAGC 1 cut(s) 759
HaeIII GGCC 1 cut(s) 654
HapII CCGG 1 cut(s) 284
HgaI GACGC 3 cut(s) 60, 100, 1001
HhaI GCGC 1 cut(s) 808
Hin1I GRCGYC 1 cut(s) 52
Hin1II CATG 5 cut(s) 379, 679, 747, 1150, 1190
Hin6I GCGC 1 cut(s) 806
HinP1I GCGC 1 cut(s) 806
HinfI GANTC 8 cut(s) 99, 248, 426, 452, 615, 878, 1183, 1214
HpaII CCGG 1 cut(s) 284
HphI GGTGA 6 cut(s) 55, 94, 229, 712, 838, 1064
Hpy166II GTNNAC 2 cut(s) 619, 1129
Hpy188I TCNGA 4 cut(s) 45, 614, 916, 1022
Hpy188III TCNNGA 3 cut(s) 590, 1052, 1187
Hpy8I GTNNAC 2 cut(s) 619, 1129
Hpy99I CGWCG 6 cut(s) 54, 60, 116, 135, 272, 461
HpyAV CCTTC 8 cut(s) 19, 31, 214, 322, 587, 628, 665, 790
HpyCH4III ACNGT 5 cut(s) 180, 307, 573, 1126, 1133
HpyCH4IV ACGT 1 cut(s) 694
HpyCH4V TGCA 8 cut(s) 4, 254, 569, 679, 743, 778, 1138, 1283
HpyF10VI GCNNNNNNNGC 4 cut(s) 715, 962, 974, 1150
HpyF3I CTNAG 2 cut(s) 279, 611
HpySE526I ACGT 1 cut(s) 694
Hsp92I GRCGYC 1 cut(s) 52
Hsp92II CATG 5 cut(s) 379, 679, 747, 1150, 1190
HspAI GCGC 1 cut(s) 806
Ksp22I TGATCA 1 cut(s) 1198
Kzo9I GATC 3 cut(s) 165, 946, 1198
LmnI GCTCC 2 cut(s) 144, 288
Lsp1109I GCAGC 1 cut(s) 977
LweI GCATC 6 cut(s) 69, 361, 757, 811, 964, 1080
MaeI CTAG 3 cut(s) 171, 698, 1154
MaeII ACGT 1 cut(s) 694
MaeIII GTNAC 3 cut(s) 307, 989, 1276
MalI GATC 3 cut(s) 167, 948, 1200
MboI GATC 3 cut(s) 165, 946, 1198
MboII GAAGA 3 cut(s) 1202, 1253, 1256
MluCI AATT 6 cut(s) 364, 646, 686, 812, 985, 1025
MlyI GAGTC 4 cut(s) 93, 242, 624, 1223
MmeI TCCRAC 3 cut(s) 111, 142, 744
MseI TTAA 7 cut(s) 258, 629, 645, 689, 864, 1031, 1223
MslI CAYNNNNRTG 1 cut(s) 200
MspCI CTTAAG 2 cut(s) 257, 863
MspI CCGG 1 cut(s) 284
MspR9I CCNGG 1 cut(s) 285
Mva1269I GAATGC 1 cut(s) 526
MvnI CGCG 3 cut(s) 111, 212, 465
MwoI GCNNNNNNNGC 4 cut(s) 715, 962, 974, 1150
NciI CCSGG 1 cut(s) 285
NcoI CCATGG 1 cut(s) 375
NdeI CATATG 1 cut(s) 313
NdeII GATC 3 cut(s) 165, 946, 1198
NlaIII CATG 5 cut(s) 379, 679, 747, 1150, 1190
NmeAIII GCCGAG 1 cut(s) 575
NmuCI GTSAC 2 cut(s) 307, 989
NspI RCATGY 3 cut(s) 679, 747, 1150
OliI CACNNNNGTG 1 cut(s) 200
PagI TCATGA 1 cut(s) 1186
PceI AGGCCT 1 cut(s) 654
PciI ACATGT 1 cut(s) 1146
PctI GAATGC 1 cut(s) 526
PfeI GAWTC 4 cut(s) 426, 452, 878, 1183
PflFI GACNNNGTC 1 cut(s) 54
PflMI CCANNNNNTGG 1 cut(s) 151
PkrI GCNGC 3 cut(s) 239, 772, 967
PleI GAGTC 4 cut(s) 93, 242, 623, 1222
PpsI GAGTC 4 cut(s) 93, 242, 623, 1222
PscI ACATGT 1 cut(s) 1146
PshBI ATTAAT 3 cut(s) 629, 645, 689
PsiI TTATAA 1 cut(s) 401
PspFI CCCAGC 1 cut(s) 755
PsrI GAACNNNNNNTAC 2 cut(s) 943, 975
PsyI GACNNNGTC 1 cut(s) 54
RsaI GTAC 4 cut(s) 182, 333, 856, 1239
RsaNI GTAC 4 cut(s) 181, 332, 855, 1238
RseI CAYNNNNRTG 1 cut(s) 200
SaqAI TTAA 7 cut(s) 258, 629, 645, 689, 864, 1031, 1223
SatI GCNGC 3 cut(s) 238, 771, 966
Sau3AI GATC 3 cut(s) 165, 946, 1198
SchI GAGTC 4 cut(s) 93, 242, 624, 1223
ScrFI CCNGG 1 cut(s) 285
SfaNI GCATC 6 cut(s) 69, 361, 757, 811, 964, 1080
SfcI CTRYAG 1 cut(s) 850
SmiMI CAYNNNNRTG 1 cut(s) 200
SmlI CTYRAG 4 cut(s) 92, 257, 660, 863
SmoI CTYRAG 4 cut(s) 92, 257, 660, 863
Sse9I AATT 6 cut(s) 364, 646, 686, 812, 985, 1025
SseBI AGGCCT 1 cut(s) 654
SsiI CCGC 8 cut(s) 69, 79, 109, 212, 237, 414, 465, 771
SspMI CTAG 3 cut(s) 171, 698, 1154
StuI AGGCCT 1 cut(s) 654
StyD4I CCNGG 1 cut(s) 283
StyI CCWWGG 1 cut(s) 375
TaaI ACNGT 5 cut(s) 180, 307, 573, 1126, 1133
TaiI ACGT 1 cut(s) 697
TaqI TCGA 6 cut(s) 246, 267, 429, 459, 589, 949
TasI AATT 6 cut(s) 364, 646, 686, 812, 985, 1025
TatI WGTACW 1 cut(s) 854
TauI GCSGC 2 cut(s) 240, 773
TfiI GAWTC 4 cut(s) 426, 452, 878, 1183
Tru1I TTAA 7 cut(s) 258, 629, 645, 689, 864, 1031, 1223
Tru9I TTAA 7 cut(s) 258, 629, 645, 689, 864, 1031, 1223
TseFI GTSAC 2 cut(s) 307, 989
TseI GCWGC 1 cut(s) 965
Tsp45I GTSAC 2 cut(s) 307, 989
TspGWI ACGGA 1 cut(s) 445
Tth111I GACNNNGTC 1 cut(s) 54
Van91I CCANNNNNTGG 1 cut(s) 151
Vha464I CTTAAG 2 cut(s) 257, 863
VspI ATTAAT 3 cut(s) 629, 645, 689
XagI CCTNNNNNAGG 1 cut(s) 326
XapI RAATTY 2 cut(s) 364, 812
XceI RCATGY 3 cut(s) 679, 747, 1150
XmiI GTMKAC 1 cut(s) 618
XspI CTAG 3 cut(s) 171, 698, 1154
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.