Rw4G004740

Pentatricopeptide repeat-containing protein

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr4
Physical Location & Seq
Reverse (-)
9267783 .. 9269528
1746 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw4G004740.1

Sequence Viewer

Length: 1746 bp
ATGGCATCAACCACCCTCCCCAAACCGAACCCACTCGAACCCGACCCGCCGCCGCTGCCACAGCCCAACGCCGCCGACCCTCTTGCAATCTACGCCCAAGCCATCAAAACCCACAACGCCGACCGTTCCCTCCACAACCACCTCATCACTCTCTGCTCCAAATCCAACCTCACCTCCTTCTCTCTCCGCCTCTTCAACCAAATCCCATCACCCAACGTCGTCTCATGGACGGCCCTGATCTCATCCCACTCCACCACCCCCGCCGCCCTCCGCCACTTCGTCTCCATGCTCCGCCACCCCACCTTCCCCAACCAGCGCACAATAGCCACCCTCTTCAAAACCTGCGCTTCTCTCTCGTCTCTCTCCTTCGGTCTCTCCCTCCACTCACTCTCCCTCAAGCTCGGTATCTCCGCCAAACCGTATTCGGGTTCCGCCCTCATACACTTCTACTCCAAATGTGGGATGCCGGTTTATGCCCAGAAGGTGCTCGATGAAATTCCCCGCAAGGATGCTGTCTGCTATGGCGCGGTGATTGTTGGGCTGGCGCAGAACTCGAGGCCCATTGATGCGCTTTTGGCTTTCGCTGACATGAAATGTAGAGATGTTGGGTCGAGTATGTATACTGTTTCGGGTGCATTGAGGGCCGCGGCGGAGCTTGCTGCTTTGGAGCAATGTAGGATCATACACACACATGCTGTTGTTACGGGGCTTGATGCGAATGTGGTTGTGGGGACTGCTTTGTTGGATGCGTATGGGAAGTCCGGGATTGTGTCTGATGCTAGGCAGGTTTTCGATGAGAATTTGCTGGTGATGAGTCTTGTGGGATGCAATGCAATGCTGGCGGCGTATGCGCAACAGGGGGATAAGAATTCAGCGGTCGAGCTTTTTAATGCAATGGAAGCTCGAGGGCTTGTACCGGATGAATATAGCTTCTTAGCGATTCTGACGTGCCTTGGCAATGCGGGTTTGGTTTTGGAAACGGATTGGTGGTTGAACAGGATGAAGGCTGATTACGGGTTGGAACCAGCACTAGAGCATTATACTTGTCTGGTTGGTGCAATGGGCCGAGCTGGTCAGTTGGAAGATGCTGAAAGGGCTGCAATGACAATGCCTATTGTGCCTGATGCTGCAGTGTGGCGAACATTGCTAACATGTGCAGCTTATCATAAATCACCCGACTTGGCTAGGTCCATGGCTAAACGGTTATTGGAAATTGATCCGCAGGACGATTCAGCTTATGTTATTGTTGCAAATGTGTTATCATCTGCAGGAAAGTGGGATGAAGTTGCAGAAGTTAGGAAGATGATGAAAGATAGGAGGGTGAAGAAGGAAGGAGGTAGGAGTTGGATTGAAGTGCGAGGAAAAGTTCATGTGTTTTTGGCTGGGGACAGAAGGCATCAAAGAATAGATGAGATATACGCAAAGTTGGCAGAATTGATGGAGGGGATAGAAAGATTAGGGTATGTGCCGTTGCAGAATGAGATGCTGCATGGGGTTGGGGAACAAGAGAAAAAGGAAGCCCTATGGTATCACAGTGAGAAGCTGGCTGTAGCATTTGGGGTGGTAAGTGGTGCTGCACCCCCCGGGAAGCCATTAAGGATTGTGAAGAATTTGAGGATTTGCAGAGATTGTCACGAGGCTTTTAAATATTTGTGTAGGTTGTTGGAGAGGGAAATCATTGTGAGGGATGTAAACCGATACCATATATTTTCAAATGGTAGCTGTAATTGTGGAGAGATGTGGTAG
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

Protein Analysis

581

Amino Acids

63.84

Weight (kDa)

8.09

Isoelectric Point (pI)

35.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 273 - 318 1.1e-09 PPR repeat family
E_motif PF20431 393 - 451 2.3e-17 E motif
DYW_deaminase PF14432 487 - 581 7.9e-33 DYW family of nucleic acid deaminases
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 852
Acc36I ACCTGC 2 cut(s) 350, 775
AccI GTMKAC 1 cut(s) 620
AccII CGCG 2 cut(s) 527, 647
AclWI GGATC 2 cut(s) 686, 1211
AcsI RAATTY 4 cut(s) 495, 799, 868, 1609
AfaI GTAC 1 cut(s) 915
AfiI CCNNNNNNNGG 2 cut(s) 425, 459
AflIII ACRYGT 1 cut(s) 1151
AgsI TTSAA 5 cut(s) 196, 337, 994, 1352, 1713
AjiI CACGTC 1 cut(s) 948
Alw21I GWGCWC 1 cut(s) 489
Alw26I GTCTC 4 cut(s) 226, 286, 363, 377
AlwI GGATC 2 cut(s) 686, 1211
Ama87I CYCGRG 3 cut(s) 553, 903, 1583
AoxI GGCC 4 cut(s) 231, 557, 642, 1063
ApeKI GCWGC 7 cut(s) 55, 659, 1097, 1127, 1157, 1486, 1574
ApoI RAATTY 4 cut(s) 495, 799, 868, 1609
AspLEI GCGC 6 cut(s) 318, 347, 527, 547, 571, 853
AspS9I GGNCC 5 cut(s) 232, 558, 642, 1063, 1188
AsuC2I CCSGG 3 cut(s) 763, 1584, 1585
AsuHPI GGTGA 6 cut(s) 163, 201, 541, 820, 1164, 1333
AvaI CYCGRG 3 cut(s) 553, 903, 1583
AvaII GGWCC 1 cut(s) 1188
BarI GAAGNNNNNNTAC 2 cut(s) 995, 1027
BauI CACGAG 1 cut(s) 1634
Bbv12I GWGCWC 1 cut(s) 489
BbvI GCAGC 7 cut(s) 42, 646, 1084, 1114, 1169, 1473, 1561
BccI CCATC 3 cut(s) 110, 214, 1432
BceAI ACGGC 2 cut(s) 246, 1453
BcgI CGANNNNNNTGC 2 cut(s) 65, 99
BcnI CCSGG 3 cut(s) 763, 1584, 1585
BcoDI GTCTC 4 cut(s) 226, 286, 363, 377
BfaI CTAG 3 cut(s) 780, 1031, 1185
BfmI CTRYAG 3 cut(s) 1128, 1266, 1548
BfuAI ACCTGC 2 cut(s) 350, 775
Bme1390I CCNGG 3 cut(s) 763, 1584, 1585
Bme18I GGWCC 1 cut(s) 1188
BmeT110I CYCGRG 3 cut(s) 553, 903, 1583
BmgBI CACGTC 1 cut(s) 948
BmgT120I GGNCC 5 cut(s) 232, 558, 642, 1063, 1188
BmiI GGNNCC 2 cut(s) 430, 1023
BmrFI CCNGG 3 cut(s) 763, 1584, 1585
BpuEI CTTGAG 1 cut(s) 380
BpuMI CCSGG 3 cut(s) 763, 1584, 1585
BsaI GGTCTC 1 cut(s) 377
BsaJI CCNNGG 5 cut(s) 645, 952, 1191, 1582, 1583
BsaWI WCCGGW 1 cut(s) 916
BsaXI ACNNNNNCTCC 8 cut(s) 158, 188, 266, 296, 374, 404, 434, 464
Bsc4I CCNNNNNNNGG 2 cut(s) 425, 459
Bse118I RCCGGY 1 cut(s) 466
Bse3DI GCAATG 8 cut(s) 677, 835, 840, 900, 964, 1065, 1107, 1142
BseDI CCNNGG 5 cut(s) 645, 952, 1191, 1582, 1583
BseGI GGATG 9 cut(s) 242, 468, 514, 751, 830, 925, 1005, 1285, 1693
BseLI CCNNNNNNNGG 2 cut(s) 425, 459
BseMI GCAATG 8 cut(s) 677, 835, 840, 900, 964, 1065, 1107, 1142
BseXI GCAGC 7 cut(s) 42, 646, 1084, 1114, 1169, 1473, 1561
BseYI CCCAGC 1 cut(s) 1382
BsgI GTGCAG 2 cut(s) 1176, 1560
Bsh1236I CGCG 2 cut(s) 527, 647
Bsh1285I CGRYCG 2 cut(s) 124, 879
BshFI GGCC 4 cut(s) 233, 559, 644, 1065
BsiEI CGRYCG 2 cut(s) 124, 879
BsiHKAI GWGCWC 1 cut(s) 489
BsiHKCI CYCGRG 3 cut(s) 553, 903, 1583
BsiSI CCGG 4 cut(s) 467, 762, 917, 1584
BslFI GGGAC 2 cut(s) 745, 1400
BslI CCNNNNNNNGG 2 cut(s) 425, 459
BsmAI GTCTC 4 cut(s) 226, 286, 363, 377
BsmBI CGTCTC 3 cut(s) 226, 286, 363
BsmFI GGGAC 2 cut(s) 745, 1400
BsnI GGCC 4 cut(s) 233, 559, 644, 1065
Bso31I GGTCTC 1 cut(s) 377
BsoBI CYCGRG 3 cut(s) 553, 903, 1583
Bsp1286I GDGCHC 1 cut(s) 489
Bsp143I GATC 3 cut(s) 237, 678, 1216
Bsp19I CCATGG 1 cut(s) 1191
BspANI GGCC 4 cut(s) 233, 559, 644, 1065
BspFNI CGCG 2 cut(s) 527, 647
BspLI GGNNCC 2 cut(s) 430, 1023
BspMAI CTGCAG 2 cut(s) 1132, 1270
BspMI ACCTGC 2 cut(s) 350, 775
BspPI GGATC 2 cut(s) 686, 1211
BspTNI GGTCTC 1 cut(s) 377
BsrDI GCAATG 8 cut(s) 677, 835, 840, 900, 964, 1065, 1107, 1142
BsrFI RCCGGY 1 cut(s) 466
BssAI RCCGGY 1 cut(s) 466
BssECI CCNNGG 5 cut(s) 645, 952, 1191, 1582, 1583
BssMI GATC 3 cut(s) 237, 678, 1216
BssNAI GTATAC 1 cut(s) 621
BssSI CACGAG 1 cut(s) 1634
BssT1I CCWWGG 2 cut(s) 952, 1191
Bst1107I GTATAC 1 cut(s) 621
Bst2BI CACGAG 1 cut(s) 1634
Bst4CI ACNGT 5 cut(s) 125, 420, 625, 1203, 1535
Bst6I CTCTTC 2 cut(s) 197, 338
BstC8I GCNNGC 4 cut(s) 543, 657, 840, 1545
BstDEI CTNAG 1 cut(s) 934
BstDSI CCRYGG 2 cut(s) 645, 1191
BstF5I GGATG 9 cut(s) 242, 468, 514, 751, 830, 925, 1005, 1285, 1693
BstFNI CGCG 2 cut(s) 527, 647
BstHHI GCGC 6 cut(s) 318, 347, 527, 547, 571, 853
BstKTI GATC 3 cut(s) 240, 681, 1219
BstMAI GTCTC 4 cut(s) 226, 286, 363, 377
BstMBI GATC 3 cut(s) 237, 678, 1216
BstMCI CGRYCG 2 cut(s) 124, 879
BstNSI RCATGY 2 cut(s) 695, 1155
BstSCI CCNGG 3 cut(s) 761, 1582, 1583
BstSFI CTRYAG 3 cut(s) 1128, 1266, 1548
BstUI CGCG 2 cut(s) 527, 647
BstV1I GCAGC 7 cut(s) 42, 646, 1084, 1114, 1169, 1473, 1561
BstZ17I GTATAC 1 cut(s) 621
BsuRI GGCC 4 cut(s) 233, 559, 644, 1065
BtgI CCRYGG 2 cut(s) 645, 1191
BtrI CACGTC 1 cut(s) 948
BtsCI GGATG 9 cut(s) 242, 468, 514, 751, 830, 925, 1005, 1285, 1693
BtsI GCAGTG 1 cut(s) 1137
BtsIMutI CAGTG 2 cut(s) 1137, 1540
BveI ACCTGC 2 cut(s) 350, 775
Cac8I GCNNGC 4 cut(s) 543, 657, 840, 1545
CfoI GCGC 6 cut(s) 318, 347, 527, 547, 571, 853
Cfr10I RCCGGY 1 cut(s) 466
Cfr13I GGNCC 5 cut(s) 232, 558, 642, 1063, 1188
Cfr42I CCGCGG 1 cut(s) 648
Cfr9I CCCGGG 1 cut(s) 1583
Csp6I GTAC 1 cut(s) 914
CviAII CATG 8 cut(s) 225, 286, 589, 692, 1152, 1192, 1370, 1490
CviQI GTAC 1 cut(s) 914
DdeI CTNAG 1 cut(s) 934
DpnI GATC 3 cut(s) 239, 680, 1218
DpnII GATC 3 cut(s) 237, 678, 1216
DraI TTTAAA 1 cut(s) 1645
Eam1104I CTCTTC 2 cut(s) 197, 338
EarI CTCTTC 2 cut(s) 197, 338
EciI GGCGGA 6 cut(s) 176, 260, 281, 400, 421, 665
Eco130I CCWWGG 2 cut(s) 952, 1191
Eco31I GGTCTC 1 cut(s) 377
Eco47I GGWCC 1 cut(s) 1188
Eco88I CYCGRG 3 cut(s) 553, 903, 1583
EcoRI GAATTC 1 cut(s) 868
EcoT14I CCWWGG 2 cut(s) 952, 1191
ErhI CCWWGG 2 cut(s) 952, 1191
Esp3I CGTCTC 3 cut(s) 226, 286, 363
FaeI CATG 8 cut(s) 228, 289, 592, 695, 1155, 1195, 1373, 1493
FaqI GGGAC 2 cut(s) 745, 1400
FatI CATG 8 cut(s) 224, 285, 588, 691, 1151, 1191, 1369, 1489
FauI CCCGC 4 cut(s) 54, 268, 509, 955
FblI GTMKAC 1 cut(s) 620
FokI GGATG 9 cut(s) 229, 475, 521, 758, 837, 932, 1012, 1292, 1700
FspBI CTAG 3 cut(s) 780, 1031, 1185
FspI TGCGCA 1 cut(s) 852
GlaI GCGC 6 cut(s) 317, 346, 526, 546, 570, 852
GsaI CCCAGC 1 cut(s) 1386
HaeIII GGCC 4 cut(s) 233, 559, 644, 1065
HapII CCGG 4 cut(s) 467, 762, 917, 1584
HhaI GCGC 6 cut(s) 318, 347, 527, 547, 571, 853
Hin1II CATG 8 cut(s) 228, 289, 592, 695, 1155, 1195, 1373, 1493
Hin6I GCGC 6 cut(s) 316, 345, 525, 545, 569, 851
HinP1I GCGC 6 cut(s) 316, 345, 525, 545, 569, 851
HinfI GANTC 3 cut(s) 814, 940, 1229
HpaII CCGG 4 cut(s) 467, 762, 917, 1584
HphI GGTGA 6 cut(s) 163, 201, 541, 820, 1164, 1333
Hpy166II GTNNAC 2 cut(s) 621, 1693
Hpy188I TCNGA 2 cut(s) 775, 945
Hpy188III TCNNGA 1 cut(s) 1634
Hpy8I GTNNAC 2 cut(s) 621, 1693
Hpy99I CGWCG 1 cut(s) 221
HpyAV CCTTC 8 cut(s) 187, 313, 376, 475, 997, 1321, 1325, 1386
HpyCH4III ACNGT 5 cut(s) 125, 420, 625, 1203, 1535
HpyCH4IV ACGT 2 cut(s) 216, 947
HpyF3I CTNAG 1 cut(s) 934
HpySE526I ACGT 2 cut(s) 216, 947
Hsp92II CATG 8 cut(s) 228, 289, 592, 695, 1155, 1195, 1373, 1493
HspAI GCGC 6 cut(s) 316, 345, 525, 545, 569, 851
KspI CCGCGG 1 cut(s) 648
Kzo9I GATC 3 cut(s) 237, 678, 1216
LmnI GCTCC 4 cut(s) 161, 294, 652, 667
Lsp1109I GCAGC 7 cut(s) 42, 646, 1084, 1114, 1169, 1473, 1561
MaeI CTAG 3 cut(s) 780, 1031, 1185
MaeII ACGT 2 cut(s) 216, 947
MaeIII GTNAC 2 cut(s) 700, 1631
MalI GATC 3 cut(s) 239, 680, 1218
MboI GATC 3 cut(s) 237, 678, 1216
MboII GAAGA 6 cut(s) 184, 325, 1094, 1312, 1336, 1618
MhlI GDGCHC 1 cut(s) 489
MluCI AATT 7 cut(s) 495, 799, 868, 1212, 1433, 1609, 1726
MlyI GAGTC 1 cut(s) 823
MmeI TCCRAC 6 cut(s) 189, 723, 999, 1059, 1325, 1644
MseI TTAA 3 cut(s) 888, 1595, 1644
MslI CAYNNNNRTG 1 cut(s) 690
MspA1I CMGCKG 3 cut(s) 55, 647, 875
MspI CCGG 4 cut(s) 467, 762, 917, 1584
MspR9I CCNGG 3 cut(s) 763, 1584, 1585
MvnI CGCG 2 cut(s) 527, 647
NciI CCSGG 3 cut(s) 763, 1584, 1585
NcoI CCATGG 1 cut(s) 1191
NdeII GATC 3 cut(s) 237, 678, 1216
NlaIII CATG 8 cut(s) 228, 289, 592, 695, 1155, 1195, 1373, 1493
NlaIV GGNNCC 2 cut(s) 430, 1023
NmeAIII GCCGAG 1 cut(s) 1091
NmuCI GTSAC 1 cut(s) 1631
NsbI TGCGCA 1 cut(s) 852
NspI RCATGY 2 cut(s) 695, 1155
PaeR7I CTCGAG 2 cut(s) 553, 903
PciI ACATGT 1 cut(s) 1151
PfeI GAWTC 2 cut(s) 940, 1229
PfoI TCCNGGA 1 cut(s) 761
PleI GAGTC 1 cut(s) 822
PpsI GAGTC 1 cut(s) 822
PscI ACATGT 1 cut(s) 1151
PspFI CCCAGC 1 cut(s) 1382
PspN4I GGNNCC 2 cut(s) 430, 1023
PspPI GGNCC 5 cut(s) 232, 558, 642, 1063, 1188
PspXI VCTCGAGB 2 cut(s) 553, 903
PstI CTGCAG 2 cut(s) 1132, 1270
RsaI GTAC 1 cut(s) 915
RsaNI GTAC 1 cut(s) 914
RseI CAYNNNNRTG 1 cut(s) 690
SacII CCGCGG 1 cut(s) 648
SaqAI TTAA 3 cut(s) 888, 1595, 1644
Sau3AI GATC 3 cut(s) 237, 678, 1216
Sau96I GGNCC 5 cut(s) 232, 558, 642, 1063, 1188
SchI GAGTC 1 cut(s) 823
ScrFI CCNGG 3 cut(s) 763, 1584, 1585
SduI GDGCHC 1 cut(s) 489
SfcI CTRYAG 3 cut(s) 1128, 1266, 1548
Sfr274I CTCGAG 2 cut(s) 553, 903
Sfr303I CCGCGG 1 cut(s) 648
SgrBI CCGCGG 1 cut(s) 648
SinI GGWCC 1 cut(s) 1188
SlaI CTCGAG 2 cut(s) 553, 903
SmaI CCCGGG 1 cut(s) 1585
SmiMI CAYNNNNRTG 1 cut(s) 690
SmlI CTYRAG 3 cut(s) 395, 553, 903
SmoI CTYRAG 3 cut(s) 395, 553, 903
Sse9I AATT 7 cut(s) 495, 799, 868, 1212, 1433, 1609, 1726
SspI AATATT 1 cut(s) 1649
SspMI CTAG 3 cut(s) 780, 1031, 1185
StyD4I CCNGG 3 cut(s) 761, 1582, 1583
StyI CCWWGG 2 cut(s) 952, 1191
TaaI ACNGT 5 cut(s) 125, 420, 625, 1203, 1535
TaiI ACGT 2 cut(s) 219, 950
TaqI TCGA 7 cut(s) 36, 489, 554, 611, 792, 879, 904
TaqII GACCGA 1 cut(s) 359
TasI AATT 7 cut(s) 495, 799, 868, 1212, 1433, 1609, 1726
TauI GCSGC 7 cut(s) 52, 55, 74, 266, 647, 650, 845
TfiI GAWTC 2 cut(s) 940, 1229
Tru1I TTAA 3 cut(s) 888, 1595, 1644
Tru9I TTAA 3 cut(s) 888, 1595, 1644
TscAI CASTG 2 cut(s) 1137, 1540
TseFI GTSAC 1 cut(s) 1631
TseI GCWGC 7 cut(s) 55, 659, 1097, 1127, 1157, 1486, 1574
Tsp45I GTSAC 1 cut(s) 1631
TspDTI ATGAA 7 cut(s) 507, 605, 936, 1016, 1296, 1322, 1358
TspGWI ACGGA 1 cut(s) 995
TspMI CCCGGG 1 cut(s) 1583
TspRI CASTG 2 cut(s) 1137, 1540
VpaK11BI GGWCC 1 cut(s) 1188
XapI RAATTY 4 cut(s) 495, 799, 868, 1609
XceI RCATGY 2 cut(s) 695, 1155
XhoI CTCGAG 2 cut(s) 553, 903
XmaI CCCGGG 1 cut(s) 1583
XmiI GTMKAC 1 cut(s) 620
XspI CTAG 3 cut(s) 780, 1031, 1185
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.