Rh4CG401500

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4C
OG0017199
Physical Location & Seq
Reverse (-)
64977717 .. 64979306
1590 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4CG401500.1

Sequence Viewer

Length: 1440 bp
ATGATCAAGACCGGTCTTGACCACAACCCTTTTGCCTTGAGCAAGCTCCTCGCCTCTTCCATTCACCACATCCAATACGCAGCCTCCATTTTCAGCCACATTCGAAACCCGAATCGCTTCATGTTCAATACATTGCTCAGAGCCTATTCCATTAGCGACGAACCAAAACAAGCTTTTCTTGTTTTCAATAACTTGAGGGCTCGTAATATTGTTCTAGACCAGTTCTCTTTCATCACCACGCTCAAAGCTTGTGCTCGTGAATTGGCCATTGGGACTGGCCAGGGGATTCATGGGGTTGTTGTGAGGTCTGGGCATGGCGGGTTTATCACTGTAAAGAATACCCTCCTGCATTTTTACTGTGTTTGTGGGAAAATTGAGGATGCCCACCACTTGTTCGATGAATTTCCTCAGAGAAATGATTTGATTTCATGGAATACTTTGATGGGTGGTTACCTTCATGTTTCGCAGCCTCGTGTGATTGTGGACTTGTTTAAGGAAACGTGCATTGGTGGTTTTGAAGCTAGTGTAACCACTGTTCTGTATCTTTTATCGGCCATTGGTGAGTTGGGAAGTTACCTTGGAGGAGAGAGTGTTCATGGCTACTGCATTAAGATGGGATTTTCCTGTAATTTACATGTGGTTACTGCTTTGATTGATGTGTATGCAAAGAATGGGGAAATTGACTTGGCGCGTCGGATTTTCGATGGAGTTGCTGTGAAGGATGTTGTTTTGTGGAATTGTTTGGTAGACAAGTATGCAAAATGTGGCATGGTAGAAGAAGCAGTAGCTTTGTTACGGCTGATGAAACTTGAAAGAACGAAACCCAATTCGTCCACATTGGCAGGACTGCTTTCAGCTTGTGCTGCTTCTGGGTCTGTGAGGGTAGGGAGGTTTCTTAAGGATTATGTGGAGGAGGAGAGATTGGTTTTGGGTGCGGTTCTTGGAACAGCTCTGGTTGATATGTACGCTAAATGTGGGTTTCTAGACAAGGCTCTTGACATTTTCGAAAGCATGGAAAACAGGGACGTGAAATCATGGACAGCCATGATTTCAGGTTACGGTGTTCATGGGGAGGCAGGTAATGCCTTGAGGCTCTTCTACAGAATGGAAGCGGAGGGCTGCCAACCTAATGAAGTCACTTTCTTGGCAGTTTTAAGTGCTTGTGGCCATGCAGGGCTAGTCAGAGAGGGAGTTAGTTGCTTTGAGATGATGGTTTGCAAGGTCTATGGGTATGTTGCTCTTGGGGAAGTTGTACAGAGAGTGCTGGCTGAACTAAACGATGACCATCCCACCAATGCAATGCTACTATCAGGGACTTATGCCATTGCTGGAAGGTTGCACGATAATACAAATATGCAGAAAACGGTGGAGGGAGAGATGGTGAGAGAAGAAAACCCAGTAAAGGAAGCTGGGCTCAGCACAATTGAGTTGGATAGTTGA

Protein Analysis

479

Amino Acids

52.63

Weight (kDa)

6.07

Isoelectric Point (pI)

28.36

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 37 - 86 2e-06 PPR repeat family
PPR_2 PF13041 240 - 288 1.6e-09 PPR repeat family
PPR PF01535 243 - 269 9.4e-06 PPR repeat
PPR_2 PF13041 342 - 389 1.9e-09 PPR repeat family
PPR_3 PF13812 342 - 390 2.7e-06 Pentatricopeptide repeat domain
PPR PF01535 345 - 374 2.3e-06 PPR repeat
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: OG0017199)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G26900
malus_domestica MD13G1073800.v1.1
prunus_persica Prupe.1G272200_v2.0.a1
pyrus_communis pycom16g06510
rosa_chinensis RchiOBHm_Chr4g0440061
rosa_laevigata RLG00000006209
rosa_multiflora Rmu_sc0001685.1_g000003
rosa_rugosa Rorug04G0324000
rosa_samantha Rh4AG374600 Rh4BG387000 Rh4CG401500 Rh4DG381200
rosa_wichuraiana Rw4G032050

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 1067
AccI GTMKAC 1 cut(s) 747
AccII CGCG 1 cut(s) 691
AciI CCGC 3 cut(s) 318, 935, 1112
AcoI YGGCCR 4 cut(s) 264, 277, 552, 1165
AcsI RAATTY 1 cut(s) 401
AfaI GTAC 2 cut(s) 965, 1254
AfiI CCNNNNNNNGG 1 cut(s) 1402
AflII CTTAAG 1 cut(s) 896
AflIII ACRYGT 1 cut(s) 634
AgeI ACCGGT 1 cut(s) 11
AgsI TTSAA 4 cut(s) 127, 187, 518, 812
AjiI CACGTC 1 cut(s) 1027
AjnI CCWGG 1 cut(s) 279
AjuI GAANNNNNNNTTGG 4 cut(s) 252, 284, 489, 521
AloI GAACNNNNNNTCC 2 cut(s) 576, 608
AluBI AGCT 8 cut(s) 46, 173, 248, 521, 788, 857, 950, 1409
AluI AGCT 8 cut(s) 46, 173, 248, 521, 788, 857, 950, 1409
Alw21I GWGCWC 1 cut(s) 256
AoxI GGCC 4 cut(s) 264, 277, 552, 1165
ApeKI GCWGC 4 cut(s) 80, 466, 863, 1119
ApoI RAATTY 1 cut(s) 401
AsiGI ACCGGT 1 cut(s) 11
Asp700I GAANNNNTTC 1 cut(s) 116
AspLEI GCGC 1 cut(s) 691
AsuHPI GGTGA 4 cut(s) 56, 226, 572, 1393
AsuII TTCGAA 2 cut(s) 103, 1005
BalI TGGCCA 3 cut(s) 266, 279, 1167
BanII GRGCYC 2 cut(s) 202, 1416
BauI CACGAG 2 cut(s) 255, 471
Bbv12I GWGCWC 1 cut(s) 256
BbvI GCAGC 4 cut(s) 92, 478, 850, 1106
BccI CCATC 6 cut(s) 436, 607, 698, 1204, 1293, 1372
BceAI ACGGC 1 cut(s) 812
BcgI CGANNNNNNTGC 4 cut(s) 31, 65, 692, 726
BciT130I CCWGG 1 cut(s) 281
BclI TGATCA 1 cut(s) 3
BfaI CTAG 4 cut(s) 215, 522, 983, 1178
BfmI CTRYAG 1 cut(s) 1099
BfrI CTTAAG 1 cut(s) 896
BfuAI ACCTGC 1 cut(s) 1067
BisI GCNGC 4 cut(s) 81, 467, 864, 1120
BlpI GCTNAGC 1 cut(s) 1415
BlsI GCNGC 4 cut(s) 82, 468, 865, 1121
Bme1390I CCNGG 1 cut(s) 281
BmgBI CACGTC 1 cut(s) 1027
BmrFI CCNGG 1 cut(s) 281
BmrI ACTGGG 1 cut(s) 1391
BmsI GCATC 1 cut(s) 370
BmuI ACTGGG 1 cut(s) 1391
Bpu1102I GCTNAGC 1 cut(s) 1415
Bpu14I TTCGAA 2 cut(s) 103, 1005
BpuEI CTTGAG 3 cut(s) 58, 214, 1108
BsaBI GATNNNNATC 1 cut(s) 1284
BsaJI CCNNGG 2 cut(s) 280, 577
BsaWI WCCGGW 1 cut(s) 11
BsaXI ACNNNNNCTCC 8 cut(s) 68, 98, 576, 606, 699, 729, 1365, 1395
Bsc4I CCNNNNNNNGG 1 cut(s) 1402
Bse118I RCCGGY 1 cut(s) 11
Bse1I ACTGG 3 cut(s) 220, 280, 1397
Bse3DI GCAATG 3 cut(s) 131, 1305, 1323
Bse8I GATNNNNATC 1 cut(s) 1284
BseBI CCWGG 1 cut(s) 281
BseDI CCNNGG 2 cut(s) 280, 577
BseGI GGATG 4 cut(s) 69, 385, 727, 1285
BseJI GATNNNNATC 1 cut(s) 1284
BseLI CCNNNNNNNGG 1 cut(s) 1402
BseMI GCAATG 3 cut(s) 131, 1305, 1323
BseMII CTCAG 3 cut(s) 151, 422, 1429
BseNI ACTGG 3 cut(s) 220, 280, 1397
BseRI GAGGAG 4 cut(s) 38, 597, 926, 929
BseXI GCAGC 4 cut(s) 92, 478, 850, 1106
BseYI CCCAGC 1 cut(s) 1409
Bsh1236I CGCG 1 cut(s) 691
BshFI GGCC 4 cut(s) 266, 279, 554, 1167
BshTI ACCGGT 1 cut(s) 11
BsiHKAI GWGCWC 1 cut(s) 256
BsiSI CCGG 1 cut(s) 12
BslFI GGGAC 3 cut(s) 286, 1037, 1327
BslI CCNNNNNNNGG 1 cut(s) 1402
BsmFI GGGAC 3 cut(s) 286, 1037, 1327
BsnI GGCC 4 cut(s) 266, 279, 554, 1167
Bsp119I TTCGAA 2 cut(s) 103, 1005
Bsp1286I GDGCHC 3 cut(s) 202, 256, 1416
Bsp1407I TGTACA 1 cut(s) 1252
Bsp143I GATC 1 cut(s) 3
Bsp1720I GCTNAGC 1 cut(s) 1415
BspACI CCGC 3 cut(s) 318, 935, 1112
BspANI GGCC 4 cut(s) 266, 279, 554, 1167
BspCNI CTCAG 3 cut(s) 150, 421, 1428
BspFNI CGCG 1 cut(s) 691
BspMI ACCTGC 1 cut(s) 1067
BspQI GCTCTTC 1 cut(s) 1100
BspT104I TTCGAA 2 cut(s) 103, 1005
BspTI CTTAAG 1 cut(s) 896
BsrDI GCAATG 3 cut(s) 131, 1305, 1323
BsrFI RCCGGY 1 cut(s) 11
BsrGI TGTACA 1 cut(s) 1252
BsrI ACTGG 3 cut(s) 220, 280, 1397
BssAI RCCGGY 1 cut(s) 11
BssECI CCNNGG 2 cut(s) 280, 577
BssMI GATC 1 cut(s) 3
BssSI CACGAG 2 cut(s) 255, 471
BssT1I CCWWGG 1 cut(s) 577
Bst2BI CACGAG 2 cut(s) 255, 471
Bst2UI CCWGG 1 cut(s) 281
Bst4CI ACNGT 5 cut(s) 331, 359, 535, 1061, 1366
Bst6I CTCTTC 2 cut(s) 61, 1100
BstAFI CTTAAG 1 cut(s) 896
BstAPI GCANNNNNTGC 1 cut(s) 1082
BstAUI TGTACA 1 cut(s) 1252
BstBI TTCGAA 2 cut(s) 103, 1005
BstC8I GCNNGC 2 cut(s) 44, 1266
BstDEI CTNAG 3 cut(s) 137, 408, 1415
BstEII GGTNACC 1 cut(s) 449
BstF5I GGATG 4 cut(s) 69, 385, 727, 1285
BstFNI CGCG 1 cut(s) 691
BstHHI GCGC 1 cut(s) 691
BstKTI GATC 1 cut(s) 6
BstMBI GATC 1 cut(s) 3
BstMWI GCNNNNNNNGC 2 cut(s) 863, 1082
BstNI CCWGG 1 cut(s) 281
BstNSI RCATGY 1 cut(s) 638
BstPI GGTNACC 1 cut(s) 449
BstSCI CCNGG 1 cut(s) 279
BstSFI CTRYAG 1 cut(s) 1099
BstUI CGCG 1 cut(s) 691
BstV1I GCAGC 4 cut(s) 92, 478, 850, 1106
BsuRI GGCC 4 cut(s) 266, 279, 554, 1167
BtrI CACGTC 1 cut(s) 1027
BtsCI GGATG 4 cut(s) 69, 385, 727, 1285
BtsIMutI CAGTG 2 cut(s) 327, 531
BveI ACCTGC 1 cut(s) 1067
Cac8I GCNNGC 2 cut(s) 44, 1266
CfoI GCGC 1 cut(s) 691
Cfr10I RCCGGY 1 cut(s) 11
CseI GACGC 1 cut(s) 680
Csp6I GTAC 2 cut(s) 964, 1253
CspAI ACCGGT 1 cut(s) 11
CviQI GTAC 2 cut(s) 964, 1253
DdeI CTNAG 3 cut(s) 137, 408, 1415
DpnI GATC 1 cut(s) 5
DpnII GATC 1 cut(s) 3
EaeI YGGCCR 4 cut(s) 264, 277, 552, 1165
Eam1104I CTCTTC 2 cut(s) 61, 1100
EarI CTCTTC 2 cut(s) 61, 1100
Eco130I CCWWGG 1 cut(s) 577
Eco24I GRGCYC 2 cut(s) 202, 1416
Eco91I GGTNACC 1 cut(s) 449
EcoO65I GGTNACC 1 cut(s) 449
EcoRII CCWGG 1 cut(s) 279
EcoT14I CCWWGG 1 cut(s) 577
EcoT38I GRGCYC 2 cut(s) 202, 1416
ErhI CCWWGG 1 cut(s) 577
FalI AAGNNNNNCTT 2 cut(s) 162, 194
FaqI GGGAC 3 cut(s) 286, 1037, 1327
FauI CCCGC 1 cut(s) 311
FbaI TGATCA 1 cut(s) 3
FblI GTMKAC 1 cut(s) 747
Fnu4HI GCNGC 4 cut(s) 81, 467, 864, 1120
FokI GGATG 4 cut(s) 56, 392, 734, 1272
FriOI GRGCYC 2 cut(s) 202, 1416
Fsp4HI GCNGC 4 cut(s) 81, 467, 864, 1120
FspBI CTAG 4 cut(s) 215, 522, 983, 1178
GlaI GCGC 1 cut(s) 690
GluI GCNGC 4 cut(s) 81, 467, 864, 1120
GsaI CCCAGC 1 cut(s) 1413
HaeIII GGCC 4 cut(s) 266, 279, 554, 1167
HapII CCGG 1 cut(s) 12
HgaI GACGC 1 cut(s) 680
HhaI GCGC 1 cut(s) 691
Hin6I GCGC 1 cut(s) 689
HinP1I GCGC 1 cut(s) 689
HindIII AAGCTT 2 cut(s) 171, 246
HinfI GANTC 2 cut(s) 112, 286
HpaII CCGG 1 cut(s) 12
HphI GGTGA 4 cut(s) 56, 226, 572, 1393
Hpy166II GTNNAC 3 cut(s) 484, 748, 834
Hpy188I TCNGA 4 cut(s) 140, 411, 696, 1184
Hpy188III TCNNGA 6 cut(s) 7, 17, 215, 257, 983, 995
Hpy8I GTNNAC 3 cut(s) 484, 748, 834
Hpy99I CGWCG 2 cut(s) 161, 696
HpyAV CCTTC 3 cut(s) 464, 712, 1326
HpyCH4III ACNGT 5 cut(s) 331, 359, 535, 1061, 1366
HpyCH4IV ACGT 2 cut(s) 500, 1026
HpyF10VI GCNNNNNNNGC 2 cut(s) 863, 1082
HpyF3I CTNAG 3 cut(s) 137, 408, 1415
HpySE526I ACGT 2 cut(s) 500, 1026
HspAI GCGC 1 cut(s) 689
Ksp22I TGATCA 1 cut(s) 3
Kzo9I GATC 1 cut(s) 3
LguI GCTCTTC 1 cut(s) 1100
LmnI GCTCC 1 cut(s) 51
Lsp1109I GCAGC 4 cut(s) 92, 478, 850, 1106
LweI GCATC 1 cut(s) 370
MaeI CTAG 4 cut(s) 215, 522, 983, 1178
MaeII ACGT 2 cut(s) 500, 1026
MaeIII GTNAC 7 cut(s) 449, 526, 572, 640, 792, 1055, 1135
MalI GATC 1 cut(s) 5
MboI GATC 1 cut(s) 3
MboII GAAGA 4 cut(s) 48, 788, 1087, 1400
MfeI CAATTG 1 cut(s) 1422
MhlI GDGCHC 3 cut(s) 202, 256, 1416
MlsI TGGCCA 3 cut(s) 266, 279, 1167
MluCI AATT 8 cut(s) 260, 372, 401, 628, 678, 736, 826, 1422
MluNI TGGCCA 3 cut(s) 266, 279, 1167
MmeI TCCRAC 2 cut(s) 674, 1410
Mox20I TGGCCA 3 cut(s) 266, 279, 1167
MroXI GAANNNNTTC 1 cut(s) 116
MscI TGGCCA 3 cut(s) 266, 279, 1167
MseI TTAA 4 cut(s) 492, 609, 897, 1154
MslI CAYNNNNRTG 1 cut(s) 611
Msp20I TGGCCA 3 cut(s) 266, 279, 1167
MspCI CTTAAG 1 cut(s) 896
MspI CCGG 1 cut(s) 12
MspR9I CCNGG 1 cut(s) 281
MunI CAATTG 1 cut(s) 1422
MvaI CCWGG 1 cut(s) 281
MvnI CGCG 1 cut(s) 691
MwoI GCNNNNNNNGC 2 cut(s) 863, 1082
NdeII GATC 1 cut(s) 3
NmuCI GTSAC 1 cut(s) 1135
NspI RCATGY 1 cut(s) 638
NspV TTCGAA 2 cut(s) 103, 1005
PciI ACATGT 1 cut(s) 634
PciSI GCTCTTC 1 cut(s) 1100
PdmI GAANNNNTTC 1 cut(s) 116
PfeI GAWTC 2 cut(s) 112, 286
PinAI ACCGGT 1 cut(s) 11
PkrI GCNGC 4 cut(s) 82, 468, 865, 1121
PscI ACATGT 1 cut(s) 634
Psp6I CCWGG 1 cut(s) 279
PspEI GGTNACC 1 cut(s) 449
PspFI CCCAGC 1 cut(s) 1409
PspGI CCWGG 1 cut(s) 279
PsrI GAACNNNNNNTAC 2 cut(s) 519, 551
RsaI GTAC 2 cut(s) 965, 1254
RsaNI GTAC 2 cut(s) 964, 1253
RseI CAYNNNNRTG 1 cut(s) 611
SapI GCTCTTC 1 cut(s) 1100
SaqAI TTAA 4 cut(s) 492, 609, 897, 1154
SatI GCNGC 4 cut(s) 81, 467, 864, 1120
Sau3AI GATC 1 cut(s) 3
ScrFI CCNGG 1 cut(s) 281
SduI GDGCHC 3 cut(s) 202, 256, 1416
SfaNI GCATC 1 cut(s) 370
SfcI CTRYAG 1 cut(s) 1099
SfuI TTCGAA 2 cut(s) 103, 1005
SmiMI CAYNNNNRTG 1 cut(s) 611
SmlI CTYRAG 4 cut(s) 37, 193, 896, 1087
SmoI CTYRAG 4 cut(s) 37, 193, 896, 1087
Sse9I AATT 8 cut(s) 260, 372, 401, 628, 678, 736, 826, 1422
SsiI CCGC 3 cut(s) 318, 935, 1112
SspI AATATT 1 cut(s) 208
SspMI CTAG 4 cut(s) 215, 522, 983, 1178
StyD4I CCNGG 1 cut(s) 279
StyI CCWWGG 1 cut(s) 577
TaaI ACNGT 5 cut(s) 331, 359, 535, 1061, 1366
TaiI ACGT 2 cut(s) 503, 1029
TaqI TCGA 4 cut(s) 103, 396, 702, 1005
TasI AATT 8 cut(s) 260, 372, 401, 628, 678, 736, 826, 1422
TatI WGTACW 1 cut(s) 1252
TfiI GAWTC 2 cut(s) 112, 286
Tru1I TTAA 4 cut(s) 492, 609, 897, 1154
Tru9I TTAA 4 cut(s) 492, 609, 897, 1154
TscAI CASTG 2 cut(s) 334, 538
TseFI GTSAC 1 cut(s) 1135
TseI GCWGC 4 cut(s) 80, 466, 863, 1119
Tsp45I GTSAC 1 cut(s) 1135
TspRI CASTG 2 cut(s) 334, 538
Vha464I CTTAAG 1 cut(s) 896
XapI RAATTY 1 cut(s) 401
XbaI TCTAGA 2 cut(s) 214, 982
XceI RCATGY 1 cut(s) 638
XcmI CCANNNNNNNNNTGG 2 cut(s) 287, 562
XmiI GTMKAC 1 cut(s) 747
XmnI GAANNNNTTC 1 cut(s) 116
XspI CTAG 4 cut(s) 215, 522, 983, 1178
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.