RLG00000014708

Pentatricopeptide repeat-containing protein

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
Physical Location & Seq
Reverse (-)
56599068 .. 56600424
1357 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000014708

Sequence Viewer

Length: 1278 bp
ATGGATCCTGTAACTGTTGCAAGTCTACTGACTGCTTGTGCACAATCAGATGATTCCTTAAGCGGGATGCTGATTCATTTGTATGTCATAAAGCATGGACTAGAGTTTGATCTGTTCGTAAGAGATTTGGTGTCATGGAACTCAATAATTGCTGCAAATGAGCAGAATGATGAGCCGATGACTGCGCTTGGATTCTTCAACAGGATGCAACTATCCAGAGTTAAGCCTGATTGGCTAACACTAGTGAGTTTGGCTTCCATTATAGCTCAATTAAATGATGCTGAAATGAGTAGGGCTGTTCATGGATTCATTTTGAGGAGAGATTGGTTCAAGGAAGATGTTGTTATTGGAAATGCAGTTGTGGACATGTATGCAAAGTTGGGTGCTATAGATTCTGCACGTACTGTTTTTGAAGGACTTCCTGGCAAGGATGTGGTTTCATGGAATACTTTGATCACGGGTTACCCCCAAAATAGTCTTGCAAGTGAGGCGAATGAAGTGTACTGTATGATGCAAGAGTGCAAAGAAATAATTCCAAACCAAGGAACTTGGGTTAGCATTCTACCAGCATATACCCATTTAGGGGCCTTGCAACAAGGGATGAGAATTCATGGGCGGGTGATCAAGAACTGTCTCTACTTAGATGTATTTGTGGGTACCTGCTTGATTGACATGTATGGAAAATGTGGGAGACTAGATGATGCATTATCGTTATTCTACGAAGTGCCCAGAATGAGTTCAGTCACTTGGAATGCCATGATTTCCTGTCTTGGAGTTCATGGGCATGGTGGGAAAGCTGTGAAGCTATTCAAAGATATGATAGATGAGGGGGTTAAGCCAGATCATGTAACCTTTGTATCTCTAATGGCAGCTTGTAGTCATTCAGGTTTGGTCAATGAGGGTGAATTGTACTTTCATATGATGCAGAAAGAGTACGGAATCAAGCCTGGTTTCAAGCACTACGGCTGCATGGTAGATTTACTTGGCGGAGCTGGGCATTTAGACAAGGCATATAGTTTTATTAAGACTATGCCTGTACAGCCTGATGCTTCTGTTTGGGGGGCACTACTTGGTGCGTGTAGAATACATGGGAATGCTGAATTGGGGAAAATTGCTTCAGAAGGCTTGTTTGAAGTTGATTCGGAGAATGTGGGCTACTATGTTTTGTTGTCAAATATATATGCAACAACCGGGAAATGGGAAGGTGTGGATAAAGTGAGATCTATGGCTAGAAACCGCGGACTGAGGAAGACCCGGGTGGAGCTCAATAGAAGTTAA

Protein Analysis

426

Amino Acids

47.02

Weight (kDa)

6.01

Isoelectric Point (pI)

31.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 143 - 190 8.8e-06 PPR repeat family
PPR_2 PF13041 246 - 293 4.6e-13 PPR repeat family
PPR PF01535 248 - 278 3.9e-08 PPR repeat
E_motif PF20431 363 - 417 4e-14 E motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 668
Acc65I GGTACC 1 cut(s) 656
AccB1I GGYRCC 1 cut(s) 656
AccI GTMKAC 1 cut(s) 25
AccII CGCG 1 cut(s) 1239
AciI CCGC 5 cut(s) 63, 616, 987, 1237, 1239
AclWI GGATC 1 cut(s) 12
AcsI RAATTY 1 cut(s) 606
AcuI CTGAAG 1 cut(s) 1101
AfaI GTAC 6 cut(s) 403, 503, 658, 911, 935, 1038
AfiI CCNNNNNNNGG 5 cut(s) 63, 542, 582, 583, 1197
AflII CTTAAG 1 cut(s) 58
AflIII ACRYGT 2 cut(s) 366, 672
AgsI TTSAA 6 cut(s) 199, 331, 413, 811, 955, 1133
AhlI ACTAGT 1 cut(s) 241
AjnI CCWGG 2 cut(s) 421, 946
AjuI GAANNNNNNNTTGG 2 cut(s) 1085, 1117
AluBI AGCT 6 cut(s) 266, 797, 805, 872, 992, 1264
AluI AGCT 6 cut(s) 266, 797, 805, 872, 992, 1264
Alw21I GWGCWC 2 cut(s) 43, 1266
Alw26I GTCTC 2 cut(s) 638, 685
Alw44I GTGCAC 1 cut(s) 39
AlwI GGATC 1 cut(s) 12
Ama87I CYCGRG 1 cut(s) 1254
AoxI GGCC 1 cut(s) 585
ApaLI GTGCAC 1 cut(s) 39
ApeKI GCWGC 3 cut(s) 152, 869, 966
ApoI RAATTY 1 cut(s) 606
Asp700I GAANNNNTTC 4 cut(s) 417, 531, 736, 806
Asp718I GGTACC 1 cut(s) 656
AspLEI GCGC 1 cut(s) 187
AspS9I GGNCC 1 cut(s) 585
AsuC2I CCSGG 3 cut(s) 1192, 1255, 1256
AsuHPI GGTGA 2 cut(s) 631, 914
AvaI CYCGRG 1 cut(s) 1254
BaeGI GKGCMC 3 cut(s) 43, 729, 1066
BaeI ACNNNNGTAYC 2 cut(s) 840, 873
BamHI GGATCC 1 cut(s) 4
BanI GGYRCC 1 cut(s) 656
BanII GRGCYC 1 cut(s) 1266
BbsI GAAGAC 1 cut(s) 1256
Bbv12I GWGCWC 2 cut(s) 43, 1266
BbvI GCAGC 3 cut(s) 139, 881, 953
BceAI ACGGC 1 cut(s) 979
BciT130I CCWGG 2 cut(s) 423, 948
BclI TGATCA 2 cut(s) 453, 621
BcnI CCSGG 3 cut(s) 1192, 1255, 1256
BcoDI GTCTC 2 cut(s) 638, 685
BcuI ACTAGT 1 cut(s) 241
BfaI CTAG 4 cut(s) 101, 242, 695, 1230
BfmI CTRYAG 1 cut(s) 387
BfrI CTTAAG 1 cut(s) 58
BfuAI ACCTGC 1 cut(s) 668
BglI GCCNNNNNGGC 1 cut(s) 232
BglII AGATCT 1 cut(s) 1220
BisI GCNGC 3 cut(s) 153, 870, 967
BlsI GCNGC 3 cut(s) 154, 871, 968
Bme1390I CCNGG 5 cut(s) 423, 948, 1192, 1255, 1256
BmeT110I CYCGRG 1 cut(s) 1254
BmgT120I GGNCC 1 cut(s) 585
BmiI GGNNCC 3 cut(s) 6, 586, 658
BmrFI CCNGG 5 cut(s) 423, 948, 1192, 1255, 1256
BmsI GCATC 7 cut(s) 57, 195, 268, 501, 691, 912, 1036
BpiI GAAGAC 1 cut(s) 1256
BpuMI CCSGG 3 cut(s) 1192, 1255, 1256
BsaAI YACGTR 1 cut(s) 401
BsaJI CCNNGG 3 cut(s) 541, 1237, 1254
Bsc4I CCNNNNNNNGG 5 cut(s) 63, 542, 582, 583, 1197
BseBI CCWGG 2 cut(s) 423, 948
BseDI CCNNGG 3 cut(s) 541, 1237, 1254
BseGI GGATG 4 cut(s) 72, 210, 436, 606
BseLI CCNNNNNNNGG 5 cut(s) 63, 542, 582, 583, 1197
BseMII CTCAG 1 cut(s) 1235
BseRI GAGGAG 1 cut(s) 331
BseSI GKGCMC 3 cut(s) 43, 729, 1066
BseXI GCAGC 3 cut(s) 139, 881, 953
BseYI CCCAGC 1 cut(s) 992
BsgI GTGCAG 1 cut(s) 381
Bsh1236I CGCG 1 cut(s) 1239
BshFI GGCC 1 cut(s) 587
BshNI GGYRCC 1 cut(s) 656
BsiHKAI GWGCWC 2 cut(s) 43, 1266
BsiHKCI CYCGRG 1 cut(s) 1254
BsiSI CCGG 2 cut(s) 1191, 1255
BslI CCNNNNNNNGG 5 cut(s) 63, 542, 582, 583, 1197
BsmAI GTCTC 2 cut(s) 638, 685
BsmI GAATGC 3 cut(s) 558, 757, 1099
BsnI GGCC 1 cut(s) 587
BsoBI CYCGRG 1 cut(s) 1254
Bsp1286I GDGCHC 4 cut(s) 43, 729, 1066, 1266
Bsp1407I TGTACA 1 cut(s) 1036
Bsp143I GATC 6 cut(s) 4, 109, 453, 621, 841, 1220
BspACI CCGC 5 cut(s) 63, 616, 987, 1237, 1239
BspANI GGCC 1 cut(s) 587
BspCNI CTCAG 1 cut(s) 1236
BspFNI CGCG 1 cut(s) 1239
BspLI GGNNCC 3 cut(s) 6, 586, 658
BspMI ACCTGC 1 cut(s) 668
BspPI GGATC 1 cut(s) 12
BspT107I GGYRCC 1 cut(s) 656
BspTI CTTAAG 1 cut(s) 58
BsrGI TGTACA 1 cut(s) 1036
BssECI CCNNGG 3 cut(s) 541, 1237, 1254
BssMI GATC 6 cut(s) 4, 109, 453, 621, 841, 1220
BssT1I CCWWGG 1 cut(s) 541
Bst2UI CCWGG 2 cut(s) 423, 948
Bst4CI ACNGT 4 cut(s) 16, 406, 506, 632
BstAFI CTTAAG 1 cut(s) 58
BstAUI TGTACA 1 cut(s) 1036
BstBAI YACGTR 1 cut(s) 401
BstDEI CTNAG 2 cut(s) 640, 1244
BstDSI CCRYGG 1 cut(s) 1237
BstEII GGTNACC 1 cut(s) 461
BstF5I GGATG 4 cut(s) 72, 210, 436, 606
BstFNI CGCG 1 cut(s) 1239
BstHHI GCGC 1 cut(s) 187
BstKTI GATC 6 cut(s) 7, 112, 456, 624, 844, 1223
BstMAI GTCTC 2 cut(s) 638, 685
BstMBI GATC 6 cut(s) 4, 109, 453, 621, 841, 1220
BstMWI GCNNNNNNNGC 3 cut(s) 232, 488, 1039
BstNI CCWGG 2 cut(s) 423, 948
BstNSI RCATGY 2 cut(s) 370, 676
BstPI GGTNACC 1 cut(s) 461
BstSCI CCNGG 5 cut(s) 421, 946, 1190, 1253, 1254
BstSFI CTRYAG 1 cut(s) 387
BstSLI GKGCMC 3 cut(s) 43, 729, 1066
BstUI CGCG 1 cut(s) 1239
BstV1I GCAGC 3 cut(s) 139, 881, 953
BstV2I GAAGAC 1 cut(s) 1256
BstX2I RGATCY 2 cut(s) 4, 1220
BstYI RGATCY 2 cut(s) 4, 1220
BsuRI GGCC 1 cut(s) 587
BtgI CCRYGG 1 cut(s) 1237
BtsCI GGATG 4 cut(s) 72, 210, 436, 606
BveI ACCTGC 1 cut(s) 668
CfoI GCGC 1 cut(s) 187
Cfr13I GGNCC 1 cut(s) 585
Cfr42I CCGCGG 1 cut(s) 1240
Cfr9I CCCGGG 1 cut(s) 1254
Csp6I GTAC 6 cut(s) 402, 502, 657, 910, 934, 1037
CviQI GTAC 6 cut(s) 402, 502, 657, 910, 934, 1037
DdeI CTNAG 2 cut(s) 640, 1244
DpnI GATC 6 cut(s) 6, 111, 455, 623, 843, 1222
DpnII GATC 6 cut(s) 4, 109, 453, 621, 841, 1220
EciI GGCGGA 1 cut(s) 1002
Ecl136II GAGCTC 1 cut(s) 1264
Eco130I CCWWGG 1 cut(s) 541
Eco24I GRGCYC 1 cut(s) 1266
Eco53kI GAGCTC 1 cut(s) 1264
Eco57I CTGAAG 1 cut(s) 1101
Eco88I CYCGRG 1 cut(s) 1254
Eco91I GGTNACC 1 cut(s) 461
EcoICRI GAGCTC 1 cut(s) 1264
EcoO109I RGGNCCY 1 cut(s) 585
EcoO65I GGTNACC 1 cut(s) 461
EcoRI GAATTC 1 cut(s) 606
EcoRII CCWGG 2 cut(s) 421, 946
EcoT14I CCWWGG 1 cut(s) 541
EcoT22I ATGCAT 1 cut(s) 706
EcoT38I GRGCYC 1 cut(s) 1266
ErhI CCWWGG 1 cut(s) 541
FauI CCCGC 2 cut(s) 56, 609
FauNDI CATATG 1 cut(s) 918
FbaI TGATCA 2 cut(s) 453, 621
FblI GTMKAC 1 cut(s) 25
Fnu4HI GCNGC 3 cut(s) 153, 870, 967
FokI GGATG 4 cut(s) 79, 217, 443, 613
FriOI GRGCYC 1 cut(s) 1266
Fsp4HI GCNGC 3 cut(s) 153, 870, 967
FspBI CTAG 4 cut(s) 101, 242, 695, 1230
GlaI GCGC 1 cut(s) 186
GluI GCNGC 3 cut(s) 153, 870, 967
GsaI CCCAGC 1 cut(s) 996
HaeIII GGCC 1 cut(s) 587
HapII CCGG 2 cut(s) 1191, 1255
HhaI GCGC 1 cut(s) 187
Hin6I GCGC 1 cut(s) 185
HinP1I GCGC 1 cut(s) 185
HinfI GANTC 7 cut(s) 53, 73, 192, 306, 392, 939, 1139
HpaII CCGG 2 cut(s) 1191, 1255
HphI GGTGA 2 cut(s) 631, 914
Hpy166II GTNNAC 4 cut(s) 26, 41, 364, 502
Hpy188I TCNGA 3 cut(s) 49, 1120, 1144
Hpy188III TCNNGA 2 cut(s) 216, 625
Hpy8I GTNNAC 4 cut(s) 26, 41, 364, 502
HpyAV CCTTC 3 cut(s) 407, 1115, 1196
HpyCH4III ACNGT 4 cut(s) 16, 406, 506, 632
HpyCH4IV ACGT 1 cut(s) 400
HpyF10VI GCNNNNNNNGC 3 cut(s) 232, 488, 1039
HpyF3I CTNAG 2 cut(s) 640, 1244
HpySE526I ACGT 1 cut(s) 400
HspAI GCGC 1 cut(s) 185
KpnI GGTACC 1 cut(s) 660
Ksp22I TGATCA 2 cut(s) 453, 621
KspI CCGCGG 1 cut(s) 1240
Kzo9I GATC 6 cut(s) 4, 109, 453, 621, 841, 1220
LmnI GCTCC 2 cut(s) 989, 1261
Lsp1109I GCAGC 3 cut(s) 139, 881, 953
LweI GCATC 7 cut(s) 57, 195, 268, 501, 691, 912, 1036
MaeI CTAG 4 cut(s) 101, 242, 695, 1230
MaeII ACGT 1 cut(s) 400
MaeIII GTNAC 4 cut(s) 10, 461, 742, 847
MalI GATC 6 cut(s) 6, 111, 455, 623, 843, 1222
MboI GATC 6 cut(s) 4, 109, 453, 621, 841, 1220
MboII GAAGA 3 cut(s) 187, 347, 1261
MflI RGATCY 2 cut(s) 4, 1220
MhlI GDGCHC 4 cut(s) 43, 729, 1066, 1266
MluCI AATT 7 cut(s) 147, 269, 531, 606, 905, 1100, 1110
MnlI CCTC 5 cut(s) 309, 481, 820, 892, 1239
Mph1103I ATGCAT 1 cut(s) 706
MroXI GAANNNNTTC 4 cut(s) 417, 531, 736, 806
MseI TTAA 6 cut(s) 59, 222, 272, 834, 1023, 1276
MslI CAYNNNNRTG 3 cut(s) 81, 783, 1092
MspA1I CMGCKG 1 cut(s) 1239
MspCI CTTAAG 1 cut(s) 58
MspI CCGG 2 cut(s) 1191, 1255
MspR9I CCNGG 5 cut(s) 423, 948, 1192, 1255, 1256
Mva1269I GAATGC 3 cut(s) 558, 757, 1099
MvaI CCWGG 2 cut(s) 423, 948
MvnI CGCG 1 cut(s) 1239
MwoI GCNNNNNNNGC 3 cut(s) 232, 488, 1039
NciI CCSGG 3 cut(s) 1192, 1255, 1256
NdeI CATATG 1 cut(s) 918
NdeII GATC 6 cut(s) 4, 109, 453, 621, 841, 1220
NlaIV GGNNCC 3 cut(s) 6, 586, 658
NmuCI GTSAC 1 cut(s) 742
NsiI ATGCAT 1 cut(s) 706
NspI RCATGY 2 cut(s) 370, 676
PciI ACATGT 2 cut(s) 366, 672
PctI GAATGC 3 cut(s) 558, 757, 1099
PdmI GAANNNNTTC 4 cut(s) 417, 531, 736, 806
PfeI GAWTC 7 cut(s) 53, 73, 192, 306, 392, 939, 1139
PkrI GCNGC 3 cut(s) 154, 871, 968
Ppu21I YACGTR 1 cut(s) 401
PscI ACATGT 2 cut(s) 366, 672
Psp124BI GAGCTC 1 cut(s) 1266
Psp6I CCWGG 2 cut(s) 421, 946
PspEI GGTNACC 1 cut(s) 461
PspFI CCCAGC 1 cut(s) 992
PspGI CCWGG 2 cut(s) 421, 946
PspN4I GGNNCC 3 cut(s) 6, 586, 658
PspPI GGNCC 1 cut(s) 585
PsrI GAACNNNNNNTAC 2 cut(s) 620, 652
PsuI RGATCY 2 cut(s) 4, 1220
RsaI GTAC 6 cut(s) 403, 503, 658, 911, 935, 1038
RsaNI GTAC 6 cut(s) 402, 502, 657, 910, 934, 1037
RseI CAYNNNNRTG 3 cut(s) 81, 783, 1092
SacI GAGCTC 1 cut(s) 1266
SacII CCGCGG 1 cut(s) 1240
SaqAI TTAA 6 cut(s) 59, 222, 272, 834, 1023, 1276
SatI GCNGC 3 cut(s) 153, 870, 967
Sau3AI GATC 6 cut(s) 4, 109, 453, 621, 841, 1220
Sau96I GGNCC 1 cut(s) 585
ScrFI CCNGG 5 cut(s) 423, 948, 1192, 1255, 1256
SduI GDGCHC 4 cut(s) 43, 729, 1066, 1266
SfaNI GCATC 7 cut(s) 57, 195, 268, 501, 691, 912, 1036
SfcI CTRYAG 1 cut(s) 387
Sfr303I CCGCGG 1 cut(s) 1240
SgrBI CCGCGG 1 cut(s) 1240
SmaI CCCGGG 1 cut(s) 1256
SmiMI CAYNNNNRTG 3 cut(s) 81, 783, 1092
SmlI CTYRAG 1 cut(s) 58
SmoI CTYRAG 1 cut(s) 58
SpeI ACTAGT 1 cut(s) 241
Sse9I AATT 7 cut(s) 147, 269, 531, 606, 905, 1100, 1110
SsiI CCGC 5 cut(s) 63, 616, 987, 1237, 1239
SspMI CTAG 4 cut(s) 101, 242, 695, 1230
SstI GAGCTC 1 cut(s) 1266
StyD4I CCNGG 5 cut(s) 421, 946, 1190, 1253, 1254
StyI CCWWGG 1 cut(s) 541
TaaI ACNGT 4 cut(s) 16, 406, 506, 632
TaiI ACGT 1 cut(s) 403
TasI AATT 7 cut(s) 147, 269, 531, 606, 905, 1100, 1110
TatI WGTACW 3 cut(s) 501, 909, 1036
TfiI GAWTC 7 cut(s) 53, 73, 192, 306, 392, 939, 1139
Tru1I TTAA 6 cut(s) 59, 222, 272, 834, 1023, 1276
Tru9I TTAA 6 cut(s) 59, 222, 272, 834, 1023, 1276
TseFI GTSAC 1 cut(s) 742
TseI GCWGC 3 cut(s) 152, 869, 966
Tsp45I GTSAC 1 cut(s) 742
TspDTI ATGAA 8 cut(s) 65, 290, 298, 429, 510, 599, 767, 905
TspGWI ACGGA 1 cut(s) 951
TspMI CCCGGG 1 cut(s) 1254
Vha464I CTTAAG 1 cut(s) 58
VneI GTGCAC 1 cut(s) 39
XapI RAATTY 1 cut(s) 606
XceI RCATGY 2 cut(s) 370, 676
XmaI CCCGGG 1 cut(s) 1254
XmiI GTMKAC 1 cut(s) 25
XmnI GAANNNNTTC 4 cut(s) 417, 531, 736, 806
XspI CTAG 4 cut(s) 101, 242, 695, 1230
Zsp2I ATGCAT 1 cut(s) 706
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.