Rh5DG438700

Pentatricopeptide repeat-containing protein At1g07740

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0013851
Physical Location & Seq
Reverse (-)
70112528 .. 70114015
1488 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG438700.1

Sequence Viewer

Length: 1488 bp
ATGGCGAAATGGGTATATAACACCGCTGCCATTTCATTCCATTCATCTCTACCTGGAAATCAAAATTCTTTCCTTCCCGCCTCCATGTTCCTTTCAAGAGCCAAAGCTTTAAATCAAGCACAATCAAACCTTCTCCTCCATTGGAGCAATCGCACAAAACTCCAACCATACCACACTCTCCGTCGACCCAACAAACCGAAGACCAAGCCTCGCCGCGAACGGCCTCACAGAGACGCCGCAAGGCCTCGCAAGCCCATACCTTTCGTCTCCGATGTCAAAGAAGTTCAGGGCCCAGAAGATGCCTTGTCTCTCTTTCGAGAGTACCACGAAATGGGCTTCAAACACGACTACCCCTCTTACTCTGCTCTCATCTATAAGCTGGCTCGTAATCGAAACTTCGAAGCCGTTGAGGCCATTCTTGGCCATGTACGAGACAGAAACATTCACTGCAAAGATACCCTTTTTATTGCTCTAATTCAACATTATGGGAAGGCCAAGTTGGTAGAGAAAGCCATTGAGCTTTTCCACCAAATCAATTCTTTTAATTGCGTCCGTACATTGCAGTCTTTCAATTCAGTGCTTAATGTGCTTGTTGATAGTGATAGGTTTGCCGATGCCGATGAGACTTTCGGTCGGTGTAATCAAATGGGTTTTCGGCCGAATTCGATTTCGTATAACATAATGATAAAGGGGTGGCTCAAGAAAGGTGAATTGGATGAAGCACGCAAGGTGTTCGATGAAATGCTTGAGAGAAAAGTGCAGCCTAGTGTGGTGACGTATAACAGTCTGATAGGGTTTTTCGGTAGAAAGGGTGAGTTGGAGGAAGCTACTGGTTTGCTCGAGGATATGAGACAGAAAGGGAAGTACCCGAATGCTGTAACATATGCATTATTGATGGAAGGTTTGTGCATAGTAGGAAAGTATGAGGAAGCAAAGAAGATGATGTTTGATATGGAGTATCGGGGTTGTAAACCACGGCTTGTGAATTATGGTGTTTTGATAAGTGATCTTGGAAGAAGAGGGAAGATTGAGGCGGCAAAATCTTTACTGCAGGAAATGAAGAAAAGGCGGTTTAAGCCAGATGTTGTGATTTATAACATATTGATTAATTTTCTTTGCAAGGAAGGTAGGGCTATAGAGGCTTATAAAGTCTTGATTGAAATGCAAGTTGGAGGTTTCGAGCCTAATGCGGCCACATACAGGATGATGGTTGATGGGTTTTGTCAGATTAAAGATTTTGAGGGAGGGCTGAAGGTTTTGATTGCCATGTTGAAAAGTAAACACTGTCCTCGGTTGAAAACATTTGAGTGCTTGGTTACAGGACTATTGAAGTGTGGGAATGTTGATGGTGCTTGTTTTGTCTTGGAGGAGATGGAAAACAGAAATATGCAATTATGTTGTGAAGCTTGGGAAGCACCAGTTGTTGATGCTTGTGGTAAGGACATTGTTGCAGGTGAGAAAATGACTGAAGTCATAGCTGCCGACTAA

Protein Analysis

495

Amino Acids

56.53

Weight (kDa)

9.09

Isoelectric Point (pI)

32.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_long PF17177 159 - 299 1.6e-08 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 189 - 231 4.8e-06 PPR repeat family
PPR_3 PF13812 213 - 269 3.6e-12 Pentatricopeptide repeat domain
PPR_1 PF12854 216 - 248 2.4e-09 PPR repeat
PPR_2 PF13041 220 - 264 4.3e-16 PPR repeat family
PPR PF01535 223 - 252 5.6e-08 PPR repeat
PPR_1 PF12854 253 - 284 3.6e-08 PPR repeat
PPR_2 PF13041 255 - 303 2.5e-14 PPR repeat family
PPR PF01535 258 - 287 1.1e-06 PPR repeat
PPR_3 PF13812 279 - 338 4e-07 Pentatricopeptide repeat domain
PPR_2 PF13041 290 - 334 8.3e-07 PPR repeat family
PPR_2 PF13041 327 - 363 2.6e-06 PPR repeat family
PPR_long PF17177 338 - 465 1.7e-08 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 358 - 389 3.3e-10 PPR repeat
PPR_2 PF13041 360 - 409 2.5e-16 PPR repeat family
PPR PF01535 363 - 392 8.3e-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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Orthologous Genes (Group: OG0013851)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G07740
fragaria_vesca FvH4_3g34780
malus_domestica MD04G1036700.v1.1 MD11G1115700.v1.1 MD12G1096600.v1.1
prunus_persica Prupe.6G007300_v2.0.a1
pyrus_communis pycom03g08320
rosa_chinensis RchiOBHm_Chr5g0062521
rosa_laevigata RLG00000035563
rosa_multiflora Rmu_sc0004988.1_g000027
rosa_roxburghii Rroxscaffold_1G00018090
rosa_rugosa Rorug05G0350400
rosa_samantha Rh5AG410400 Rh5BG424400 Rh5CG448100 Rh5DG438700
rosa_wichuraiana Rw5G038640

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 1095, 1146
AarI CACCTGC 1 cut(s) 1442
Acc36I ACCTGC 1 cut(s) 1442
AccB7I CCANNNNNTGG 1 cut(s) 331
AccI GTMKAC 1 cut(s) 184
AccII CGCG 1 cut(s) 216
AciI CCGC 7 cut(s) 24, 78, 214, 237, 1034, 1069, 1190
AcoI YGGCCR 3 cut(s) 421, 656, 1191
AcsI RAATTY 2 cut(s) 64, 661
AcuI CTGAAG 2 cut(s) 1271, 1488
AcyI GRCGYC 1 cut(s) 234
AfaI GTAC 4 cut(s) 323, 429, 556, 866
AfiI CCNNNNNNNGG 2 cut(s) 331, 1200
AgsI TTSAA 8 cut(s) 96, 340, 479, 571, 1160, 1273, 1297, 1330
AhdI GACNNNNNGTC 1 cut(s) 630
AjnI CCWGG 1 cut(s) 52
AjuI GAANNNNNNNTTGG 6 cut(s) 482, 514, 695, 727, 1152, 1184
AluBI AGCT 6 cut(s) 107, 379, 520, 827, 1406, 1478
AluI AGCT 6 cut(s) 107, 379, 520, 827, 1406, 1478
Alw26I GTCTC 6 cut(s) 225, 271, 312, 426, 617, 844
Ama87I CYCGRG 1 cut(s) 839
AoxI GGCC 8 cut(s) 221, 242, 289, 411, 421, 492, 656, 1191
ApaI GGGCCC 1 cut(s) 293
ApeKI GCWGC 3 cut(s) 26, 760, 1478
ApoI RAATTY 2 cut(s) 64, 661
AseI ATTAAT 1 cut(s) 1107
AspS9I GGNCC 2 cut(s) 289, 290
AsuHPI GGTGA 4 cut(s) 719, 784, 824, 1466
AsuII TTCGAA 1 cut(s) 399
AvaI CYCGRG 1 cut(s) 839
BaeGI GKGCMC 1 cut(s) 293
BalI TGGCCA 1 cut(s) 423
BanII GRGCYC 1 cut(s) 293
BbsI GAAGAC 1 cut(s) 206
BbvI GCAGC 3 cut(s) 13, 772, 1465
BccI CCATC 5 cut(s) 889, 1201, 1208, 1340, 1366
BceAI ACGGC 3 cut(s) 236, 389, 992
BcgI CGANNNNNNTGC 4 cut(s) 715, 749, 1169, 1203
BciT130I CCWGG 1 cut(s) 54
BcoDI GTCTC 6 cut(s) 225, 271, 312, 426, 617, 844
BfaI CTAG 1 cut(s) 765
BfmI CTRYAG 2 cut(s) 1049, 1134
BfuAI ACCTGC 1 cut(s) 1442
BglI GCCNNNNNGGC 1 cut(s) 410
BisI GCNGC 7 cut(s) 27, 214, 237, 761, 1035, 1191, 1479
BlsI GCNGC 7 cut(s) 28, 215, 238, 762, 1036, 1192, 1480
Bme1390I CCNGG 1 cut(s) 54
BmeRI GACNNNNNGTC 1 cut(s) 630
BmeT110I CYCGRG 1 cut(s) 839
BmgT120I GGNCC 2 cut(s) 289, 290
BmiI GGNNCC 1 cut(s) 291
BmrFI CCNGG 1 cut(s) 54
BmsI GCATC 3 cut(s) 289, 604, 1417
BoxI GACNNNNGTC 1 cut(s) 1469
BpiI GAAGAC 1 cut(s) 206
Bpu14I TTCGAA 1 cut(s) 399
BpuEI CTTGAG 2 cut(s) 683, 767
BsaHI GRCGYC 1 cut(s) 234
BsaJI CCNNGG 2 cut(s) 974, 1289
Bsc4I CCNNNNNNNGG 2 cut(s) 331, 1200
Bse1I ACTGG 2 cut(s) 835, 1418
Bse3DI GCAATG 1 cut(s) 557
BseBI CCWGG 1 cut(s) 54
BseDI CCNNGG 2 cut(s) 974, 1289
BseGI GGATG 2 cut(s) 721, 1209
BseLI CCNNNNNNNGG 2 cut(s) 331, 1200
BseMI GCAATG 1 cut(s) 557
BseNI ACTGG 2 cut(s) 835, 1418
BseRI GAGGAG 2 cut(s) 125, 1382
BseSI GKGCMC 1 cut(s) 293
BseX3I CGGCCG 1 cut(s) 656
BseXI GCAGC 3 cut(s) 13, 772, 1465
BsgI GTGCAG 1 cut(s) 779
Bsh1236I CGCG 1 cut(s) 216
Bsh1285I CGRYCG 2 cut(s) 634, 659
BshFI GGCC 8 cut(s) 223, 244, 291, 413, 423, 494, 658, 1193
BsiEI CGRYCG 2 cut(s) 634, 659
BsiHKCI CYCGRG 1 cut(s) 839
BslI CCNNNNNNNGG 2 cut(s) 331, 1200
BsmAI GTCTC 6 cut(s) 225, 271, 312, 426, 617, 844
BsmBI CGTCTC 2 cut(s) 225, 271
BsmI GAATGC 1 cut(s) 877
BsnI GGCC 8 cut(s) 223, 244, 291, 413, 423, 494, 658, 1193
BsoBI CYCGRG 1 cut(s) 839
Bsp119I TTCGAA 1 cut(s) 399
Bsp120I GGGCCC 1 cut(s) 289
Bsp1286I GDGCHC 1 cut(s) 293
Bsp143I GATC 1 cut(s) 1006
BspACI CCGC 7 cut(s) 24, 78, 214, 237, 1034, 1069, 1190
BspANI GGCC 8 cut(s) 223, 244, 291, 413, 423, 494, 658, 1193
BspFNI CGCG 1 cut(s) 216
BspLI GGNNCC 1 cut(s) 291
BspMAI CTGCAG 1 cut(s) 1053
BspMI ACCTGC 1 cut(s) 1442
BspT104I TTCGAA 1 cut(s) 399
BsrDI GCAATG 1 cut(s) 557
BsrI ACTGG 2 cut(s) 835, 1418
BssECI CCNNGG 2 cut(s) 974, 1289
BssMI GATC 1 cut(s) 1006
BssNI GRCGYC 1 cut(s) 234
Bst2UI CCWGG 1 cut(s) 54
Bst4CI ACNGT 2 cut(s) 785, 1286
Bst6I CTCTTC 1 cut(s) 1012
BstACI GRCGYC 1 cut(s) 234
BstBI TTCGAA 1 cut(s) 399
BstC8I GCNNGC 3 cut(s) 251, 381, 724
BstDSI CCRYGG 1 cut(s) 974
BstF5I GGATG 2 cut(s) 721, 1209
BstFNI CGCG 1 cut(s) 216
BstKTI GATC 1 cut(s) 1009
BstMAI GTCTC 6 cut(s) 225, 271, 312, 426, 617, 844
BstMBI GATC 1 cut(s) 1006
BstMCI CGRYCG 2 cut(s) 634, 659
BstMWI GCNNNNNNNGC 6 cut(s) 250, 410, 586, 1075, 1139, 1412
BstNI CCWGG 1 cut(s) 54
BstPAI GACNNNNGTC 1 cut(s) 1469
BstSCI CCNGG 1 cut(s) 52
BstSFI CTRYAG 2 cut(s) 1049, 1134
BstSLI GKGCMC 1 cut(s) 293
BstUI CGCG 1 cut(s) 216
BstV1I GCAGC 3 cut(s) 13, 772, 1465
BstV2I GAAGAC 1 cut(s) 206
BstZI CGGCCG 1 cut(s) 656
BsuRI GGCC 8 cut(s) 223, 244, 291, 413, 423, 494, 658, 1193
BtgI CCRYGG 1 cut(s) 974
BtsCI GGATG 2 cut(s) 721, 1209
BtsI GCAGTG 1 cut(s) 445
BtsIMutI CAGTG 3 cut(s) 445, 582, 1282
BveI ACCTGC 1 cut(s) 1442
Cac8I GCNNGC 3 cut(s) 251, 381, 724
Cfr13I GGNCC 2 cut(s) 289, 290
CseI GACGC 2 cut(s) 242, 538
Csp6I GTAC 4 cut(s) 322, 428, 555, 865
CviAII CATG 3 cut(s) 85, 425, 1267
CviQI GTAC 4 cut(s) 322, 428, 555, 865
DpnI GATC 1 cut(s) 1008
DpnII GATC 1 cut(s) 1006
DraI TTTAAA 1 cut(s) 111
DriI GACNNNNNGTC 1 cut(s) 630
EaeI YGGCCR 3 cut(s) 421, 656, 1191
EagI CGGCCG 1 cut(s) 656
Eam1104I CTCTTC 1 cut(s) 1012
Eam1105I GACNNNNNGTC 1 cut(s) 630
EarI CTCTTC 1 cut(s) 1012
EclXI CGGCCG 1 cut(s) 656
Eco147I AGGCCT 1 cut(s) 244
Eco24I GRGCYC 1 cut(s) 293
Eco52I CGGCCG 1 cut(s) 656
Eco57I CTGAAG 2 cut(s) 1271, 1488
Eco88I CYCGRG 1 cut(s) 839
EcoO109I RGGNCCY 1 cut(s) 289
EcoRI GAATTC 1 cut(s) 661
EcoRII CCWGG 1 cut(s) 52
EcoT22I ATGCAT 1 cut(s) 889
EcoT38I GRGCYC 1 cut(s) 293
Esp3I CGTCTC 2 cut(s) 225, 271
FaeI CATG 3 cut(s) 88, 428, 1270
FalI AAGNNNNNCTT 2 cut(s) 444, 476
FatI CATG 3 cut(s) 84, 424, 1266
FauI CCCGC 1 cut(s) 85
FauNDI CATATG 1 cut(s) 883
FblI GTMKAC 1 cut(s) 184
Fnu4HI GCNGC 7 cut(s) 27, 214, 237, 761, 1035, 1191, 1479
FokI GGATG 2 cut(s) 728, 1216
FriOI GRGCYC 1 cut(s) 293
Fsp4HI GCNGC 7 cut(s) 27, 214, 237, 761, 1035, 1191, 1479
FspBI CTAG 1 cut(s) 765
GluI GCNGC 7 cut(s) 27, 214, 237, 761, 1035, 1191, 1479
HaeIII GGCC 8 cut(s) 223, 244, 291, 413, 423, 494, 658, 1193
HgaI GACGC 2 cut(s) 242, 538
Hin1I GRCGYC 1 cut(s) 234
Hin1II CATG 3 cut(s) 88, 428, 1270
HincII GTYRAC 1 cut(s) 185
HindII GTYRAC 1 cut(s) 185
HindIII AAGCTT 2 cut(s) 105, 1404
HphI GGTGA 4 cut(s) 719, 784, 824, 1466
Hpy166II GTNNAC 3 cut(s) 185, 971, 1280
Hpy188I TCNGA 3 cut(s) 271, 789, 1227
Hpy188III TCNNGA 4 cut(s) 96, 317, 700, 1153
Hpy8I GTNNAC 3 cut(s) 185, 971, 1280
Hpy99I CGWCG 1 cut(s) 186
HpyAV CCTTC 6 cut(s) 83, 140, 484, 893, 1118, 1246
HpyCH4III ACNGT 2 cut(s) 785, 1286
HpyCH4IV ACGT 1 cut(s) 776
HpyF10VI GCNNNNNNNGC 6 cut(s) 250, 410, 586, 1075, 1139, 1412
HpySE526I ACGT 1 cut(s) 776
Hsp92I GRCGYC 1 cut(s) 234
Hsp92II CATG 3 cut(s) 88, 428, 1270
Kzo9I GATC 1 cut(s) 1006
LmnI GCTCC 1 cut(s) 144
Lsp1109I GCAGC 3 cut(s) 13, 772, 1465
LweI GCATC 3 cut(s) 289, 604, 1417
MaeI CTAG 1 cut(s) 765
MaeII ACGT 1 cut(s) 776
MaeIII GTNAC 3 cut(s) 772, 877, 1315
MalI GATC 1 cut(s) 1008
MboI GATC 1 cut(s) 1006
MboII GAAGA 7 cut(s) 211, 308, 949, 1026, 1029, 1036, 1072
MhlI GDGCHC 1 cut(s) 293
MlsI TGGCCA 1 cut(s) 423
MluNI TGGCCA 1 cut(s) 423
MmeI TCCRAC 3 cut(s) 187, 798, 1150
Mox20I TGGCCA 1 cut(s) 423
Mph1103I ATGCAT 1 cut(s) 889
MscI TGGCCA 1 cut(s) 423
MseI TTAA 6 cut(s) 110, 543, 582, 1074, 1107, 1230
MslI CAYNNNNRTG 1 cut(s) 1306
Msp20I TGGCCA 1 cut(s) 423
MspA1I CMGCKG 1 cut(s) 26
MspR9I CCNGG 1 cut(s) 54
Mva1269I GAATGC 1 cut(s) 877
MvaI CCWGG 1 cut(s) 54
MvnI CGCG 1 cut(s) 216
MwoI GCNNNNNNNGC 6 cut(s) 250, 410, 586, 1075, 1139, 1412
NdeI CATATG 1 cut(s) 883
NdeII GATC 1 cut(s) 1006
NlaIII CATG 3 cut(s) 88, 428, 1270
NlaIV GGNNCC 1 cut(s) 291
NmuCI GTSAC 1 cut(s) 772
NsiI ATGCAT 1 cut(s) 889
NspV TTCGAA 1 cut(s) 399
PaeR7I CTCGAG 1 cut(s) 839
PaqCI CACCTGC 1 cut(s) 1442
PceI AGGCCT 1 cut(s) 244
PctI GAATGC 1 cut(s) 877
PflMI CCANNNNNTGG 1 cut(s) 331
PkrI GCNGC 7 cut(s) 28, 215, 238, 762, 1036, 1192, 1480
PshAI GACNNNNGTC 1 cut(s) 1469
PshBI ATTAAT 1 cut(s) 1107
PsiI TTATAA 2 cut(s) 1095, 1146
Psp6I CCWGG 1 cut(s) 52
PspGI CCWGG 1 cut(s) 52
PspN4I GGNNCC 1 cut(s) 291
PspOMI GGGCCC 1 cut(s) 289
PspPI GGNCC 2 cut(s) 289, 290
PspXI VCTCGAGB 1 cut(s) 839
PstI CTGCAG 1 cut(s) 1053
RsaI GTAC 4 cut(s) 323, 429, 556, 866
RsaNI GTAC 4 cut(s) 322, 428, 555, 865
RseI CAYNNNNRTG 1 cut(s) 1306
SalI GTCGAC 1 cut(s) 183
SaqAI TTAA 6 cut(s) 110, 543, 582, 1074, 1107, 1230
SatI GCNGC 7 cut(s) 27, 214, 237, 761, 1035, 1191, 1479
Sau3AI GATC 1 cut(s) 1006
Sau96I GGNCC 2 cut(s) 289, 290
ScrFI CCNGG 1 cut(s) 54
SduI GDGCHC 1 cut(s) 293
SfaNI GCATC 3 cut(s) 289, 604, 1417
SfcI CTRYAG 2 cut(s) 1049, 1134
Sfr274I CTCGAG 1 cut(s) 839
SfuI TTCGAA 1 cut(s) 399
SlaI CTCGAG 1 cut(s) 839
SmiMI CAYNNNNRTG 1 cut(s) 1306
SmlI CTYRAG 3 cut(s) 698, 746, 839
SmoI CTYRAG 3 cut(s) 698, 746, 839
SseBI AGGCCT 1 cut(s) 244
SsiI CCGC 7 cut(s) 24, 78, 214, 237, 1034, 1069, 1190
SspMI CTAG 1 cut(s) 765
StuI AGGCCT 1 cut(s) 244
StyD4I CCNGG 1 cut(s) 52
TaaI ACNGT 2 cut(s) 785, 1286
TaiI ACGT 1 cut(s) 779
TaqI TCGA 8 cut(s) 184, 316, 391, 399, 665, 735, 840, 1179
TaqII GACCGA 1 cut(s) 620
TauI GCSGC 4 cut(s) 216, 239, 1037, 1193
Tru1I TTAA 6 cut(s) 110, 543, 582, 1074, 1107, 1230
Tru9I TTAA 6 cut(s) 110, 543, 582, 1074, 1107, 1230
TscAI CASTG 3 cut(s) 452, 582, 1289
TseFI GTSAC 1 cut(s) 772
TseI GCWGC 3 cut(s) 26, 760, 1478
Tsp45I GTSAC 1 cut(s) 772
TspDTI ATGAA 5 cut(s) 24, 33, 732, 753, 1073
TspGWI ACGGA 2 cut(s) 170, 542
TspRI CASTG 3 cut(s) 452, 582, 1289
Van91I CCANNNNNTGG 1 cut(s) 331
VspI ATTAAT 1 cut(s) 1107
XapI RAATTY 2 cut(s) 64, 661
XhoI CTCGAG 1 cut(s) 839
XmiI GTMKAC 1 cut(s) 184
XspI CTAG 1 cut(s) 765
Zsp2I ATGCAT 1 cut(s) 889
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.