RLG00000018808

Pentatricopeptide repeat-containing protein

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr4
Physical Location & Seq
Reverse (-)
36607516 .. 36609929
2414 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000018808

Sequence Viewer

Length: 1698 bp
ATGCATGCTCGTATTCTAGTCTCAACTGGGTTCAAGCCCCTCAATCTTTTTTCAAAGTTGGTTTCTTTGTATGCTCGGTTCAATGACCTTGGCAGCGCTGTTTCGGTTTTCAGCGCCATTCAAGAACCAAATACCATGCTGTGGAATCTAATCATAAGGACCCACATTGACTCGGGTCGTGTTGCTTCGGCTTTGTTGTTGTACAGAAAGATGCGCGAGTTGGGTGTTTCACATGATTGTTTTACATTCCCAATTGTTAACAAGGCGGTCTTGTTGGTTGGGAGTGATGTTAGATATGCAGGAATGGTTCATTCTGTGGCAATTCAAATGGGTTTTGGACTGGATGTGTATTTTGGCAATACTATGATTGAGGTGTACGTGAAATGCGGCAATCTCAGTTACGCCCGTAAGTTGTTTGATGAAATGCCTGACGCAGATTTAGTTTCTTGGACTTCGATGATTTCCGGGTATGTTTCTGAAGGAAATGTTGCTTCTGGGTTTAGTTTGTTCAGTGAAATGAGAATGGAACTGGAACCGAATTCGGTGACAATGTTGGTCATGTTGCAAGCGTGTTGTGGTTTTGAAACTTCAATATATGGAAGGCAGGTTCATGGATATGTGATTAAGAATGGTTTGCTAAGTAATGGAGCTGTTCAGAACTCAATCTTGAGAACGTATGCTAAATTAGGTACTACTGAAGAAGTCGAAGACTTTTTCAGGGAACTTGATAGGAGGGATGTTGTTTCCTGGAATATTTGTATTTCATCTTATACTTCGAAAGGGGATTTTGTGAAAGTAAGAGATTTGTTCAATGAGATGCAGGGTGGAGTAGCACCAAGTATTGAGACATTAACTATAGTTATAACAGCATTGACCAAACATGGGATTCTATCCCAAGGTGAAAGCTTGCATGGTTTAGCAATAAAAAGTGGTCTTCATGATGATGTTTTGCAGACATCTTTGTTGGACTTTTATGCCAAATGTGGAAAATTGGAAAGCTCGGATAAATTGTTTAGAGAACTCCCTCATAGAAACTGCATTACTGGCAGTGTAATGATGTTAGGACTCATTCATAATGGGTATTTCAATGAAGCAGTTGGAGTATTTAGACAAATGCAAGCTGCAGGTCTTGATCCAGGGCCAGAGATGCTAAGAAACCTTATTGATGCATTTGCAAATTTAGGTGCTCTAAAGTTAGGAAAAGCAGTTCATGGCTACATAATAAGGAAATCATTTTACGGAACTGAGGAAGGCCATGCTCATCTTGAAACCTCCATATTAAACATGTACATAAGATGTGGTAGCATATCTACATCTACAGTGTGTTTTAATAGAATGGTTTTCAAAGATGTGGTTGCATGGACATCAATGATCGAGGGTTATGGGATCCATGGGCTTGGTTTTGAAGCCGCGAAACTCTTTGATCTAATGACAAGAGAAGGAATAAAGCCAAATAGTGTCACCTTCTTAAGCTTGTTGTCTGCTTGTAGCCACTCTGGTCTTGTGACTGAAGGCTATGAAGCTTTTTATTCCATGAAATGGAGGTTTGGAATTGAACCCAATTTAGATCATTACACTTGTGTTGTTGATCTCTTGGGCAGATCTGGAAAGCTCAAAGAGGCCTTGGCTGTCATTTTGAAAATGTTGGCTTTTCCAGATAGACTTCAAGCAATAGCAAATGGTGATTTCCTTGTATGA
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

566

Amino Acids

62.51

Weight (kDa)

6.47

Isoelectric Point (pI)

28.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 43 - 86 5.2e-06 PPR repeat family
PPR_2 PF13041 146 - 192 2.9e-10 PPR repeat family
PPR PF01535 148 - 175 3.3e-06 PPR repeat
PPR_2 PF13041 245 - 292 3e-09 PPR repeat family
PPR_2 PF13041 449 - 497 2.2e-11 PPR repeat family
PPR PF01535 452 - 482 1.7e-06 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

Orthologous Genes (Group: OG0012639)

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 863
Acc36I ACCTGC 2 cut(s) 595, 1115
AccB7I CCANNNNNTGG 2 cut(s) 141, 1539
AccII CGCG 2 cut(s) 216, 1412
AciI CCGC 3 cut(s) 266, 387, 1410
AclWI GGATC 3 cut(s) 1127, 1381, 1394
AcsI RAATTY 2 cut(s) 538, 1177
AcuI CTGAAG 3 cut(s) 498, 717, 1530
AfaI GTAC 4 cut(s) 203, 377, 691, 1289
AfeI AGCGCT 1 cut(s) 97
AfiI CCNNNNNNNGG 3 cut(s) 141, 882, 1539
AflII CTTAAG 1 cut(s) 1468
AflIII ACRYGT 1 cut(s) 1284
AjnI CCWGG 2 cut(s) 746, 1135
AloI GAACNNNNNNTCC 4 cut(s) 591, 623, 1191, 1223
AluBI AGCT 7 cut(s) 650, 906, 999, 1121, 1473, 1523, 1612
AluI AGCT 7 cut(s) 650, 906, 999, 1121, 1473, 1523, 1612
Alw21I GWGCWC 1 cut(s) 1189
Alw26I GTCTC 2 cut(s) 25, 839
AlwI GGATC 3 cut(s) 1127, 1381, 1394
Ama87I CYCGRG 1 cut(s) 172
Aor51HI AGCGCT 1 cut(s) 97
AoxI GGCC 3 cut(s) 1139, 1252, 1620
ApeKI GCWGC 2 cut(s) 93, 1121
ApoI RAATTY 2 cut(s) 538, 1177
AspLEI GCGC 3 cut(s) 98, 116, 216
AspS9I GGNCC 2 cut(s) 159, 1139
AsuC2I CCSGG 1 cut(s) 466
AsuHPI GGTGA 4 cut(s) 556, 911, 1453, 1694
AsuII TTCGAA 1 cut(s) 776
AvaI CYCGRG 1 cut(s) 172
AvaII GGWCC 1 cut(s) 159
BamHI GGATCC 1 cut(s) 1386
BbsI GAAGAC 2 cut(s) 714, 926
Bbv12I GWGCWC 1 cut(s) 1189
BbvI GCAGC 2 cut(s) 105, 1108
BciT130I CCWGG 2 cut(s) 748, 1137
BcnI CCSGG 1 cut(s) 466
BcoDI GTCTC 2 cut(s) 25, 839
BfaI CTAG 1 cut(s) 17
BfmI CTRYAG 3 cut(s) 855, 1122, 1317
BfoI RGCGCY 2 cut(s) 99, 117
BfrI CTTAAG 1 cut(s) 1468
BfuAI ACCTGC 2 cut(s) 595, 1115
BglII AGATCT 1 cut(s) 1601
BisI GCNGC 4 cut(s) 94, 388, 1122, 1410
BlsI GCNGC 4 cut(s) 95, 389, 1123, 1411
Bme1390I CCNGG 3 cut(s) 466, 748, 1137
Bme18I GGWCC 1 cut(s) 159
BmeT110I CYCGRG 1 cut(s) 172
BmgT120I GGNCC 2 cut(s) 159, 1139
BmiI GGNNCC 3 cut(s) 161, 534, 1388
BmrFI CCNGG 3 cut(s) 466, 748, 1137
BmrI ACTGGG 1 cut(s) 36
BmsI GCATC 4 cut(s) 201, 807, 1137, 1156
BmuI ACTGGG 1 cut(s) 36
BoxI GACNNNNGTC 1 cut(s) 174
BpiI GAAGAC 2 cut(s) 714, 926
Bpu14I TTCGAA 1 cut(s) 776
BpuEI CTTGAG 1 cut(s) 688
BpuMI CCSGG 1 cut(s) 466
BsaAI YACGTR 1 cut(s) 379
BsaJI CCNNGG 5 cut(s) 88, 895, 1136, 1390, 1623
Bsc4I CCNNNNNNNGG 3 cut(s) 141, 882, 1539
Bse1I ACTGG 4 cut(s) 31, 345, 534, 1048
BseBI CCWGG 2 cut(s) 748, 1137
BseDI CCNNGG 5 cut(s) 88, 895, 1136, 1390, 1623
BseGI GGATG 2 cut(s) 349, 742
BseLI CCNNNNNNNGG 3 cut(s) 141, 882, 1539
BseMII CTCAG 2 cut(s) 409, 1236
BseNI ACTGG 4 cut(s) 31, 345, 534, 1048
BseXI GCAGC 2 cut(s) 105, 1108
Bsh1236I CGCG 2 cut(s) 216, 1412
BshFI GGCC 3 cut(s) 1141, 1254, 1622
BsiHKAI GWGCWC 1 cut(s) 1189
BsiHKCI CYCGRG 1 cut(s) 172
BsiSI CCGG 1 cut(s) 465
BslI CCNNNNNNNGG 3 cut(s) 141, 882, 1539
BsmAI GTCTC 2 cut(s) 25, 839
BsnI GGCC 3 cut(s) 1141, 1254, 1622
BsoBI CYCGRG 1 cut(s) 172
Bsp119I TTCGAA 1 cut(s) 776
Bsp1286I GDGCHC 1 cut(s) 1189
Bsp1407I TGTACA 2 cut(s) 201, 1287
Bsp143I GATC 7 cut(s) 1132, 1371, 1386, 1423, 1567, 1588, 1601
Bsp19I CCATGG 1 cut(s) 1390
BspACI CCGC 3 cut(s) 266, 387, 1410
BspANI GGCC 3 cut(s) 1141, 1254, 1622
BspCNI CTCAG 2 cut(s) 408, 1237
BspFNI CGCG 2 cut(s) 216, 1412
BspHI TCATGA 1 cut(s) 937
BspLI GGNNCC 3 cut(s) 161, 534, 1388
BspMAI CTGCAG 1 cut(s) 1126
BspMI ACCTGC 2 cut(s) 595, 1115
BspPI GGATC 3 cut(s) 1127, 1381, 1394
BspT104I TTCGAA 1 cut(s) 776
BspTI CTTAAG 1 cut(s) 1468
BsrGI TGTACA 2 cut(s) 201, 1287
BsrI ACTGG 4 cut(s) 31, 345, 534, 1048
BssECI CCNNGG 5 cut(s) 88, 895, 1136, 1390, 1623
BssMI GATC 7 cut(s) 1132, 1371, 1386, 1423, 1567, 1588, 1601
BssT1I CCWWGG 4 cut(s) 88, 895, 1390, 1623
Bst2UI CCWGG 2 cut(s) 748, 1137
Bst4CI ACNGT 1 cut(s) 1321
BstAFI CTTAAG 1 cut(s) 1468
BstAUI TGTACA 2 cut(s) 201, 1287
BstBAI YACGTR 1 cut(s) 379
BstBI TTCGAA 1 cut(s) 776
BstC8I GCNNGC 4 cut(s) 6, 567, 908, 1119
BstDEI CTNAG 4 cut(s) 395, 638, 1151, 1245
BstDSI CCRYGG 1 cut(s) 1390
BstF5I GGATG 2 cut(s) 349, 742
BstFNI CGCG 2 cut(s) 216, 1412
BstH2I RGCGCY 2 cut(s) 99, 117
BstHHI GCGC 3 cut(s) 98, 116, 216
BstKTI GATC 7 cut(s) 1135, 1374, 1389, 1426, 1570, 1591, 1604
BstMAI GTCTC 2 cut(s) 25, 839
BstMBI GATC 7 cut(s) 1132, 1371, 1386, 1423, 1567, 1588, 1601
BstMWI GCNNNNNNNGC 2 cut(s) 1044, 1147
BstNI CCWGG 2 cut(s) 748, 1137
BstNSI RCATGY 2 cut(s) 8, 1288
BstPAI GACNNNNGTC 1 cut(s) 174
BstSCI CCNGG 3 cut(s) 464, 746, 1135
BstSFI CTRYAG 3 cut(s) 855, 1122, 1317
BstUI CGCG 2 cut(s) 216, 1412
BstV1I GCAGC 2 cut(s) 105, 1108
BstV2I GAAGAC 2 cut(s) 714, 926
BstX2I RGATCY 2 cut(s) 1386, 1601
BstXI CCANNNNNNTGG 1 cut(s) 1397
BstYI RGATCY 2 cut(s) 1386, 1601
BsuRI GGCC 3 cut(s) 1141, 1254, 1622
BtgI CCRYGG 1 cut(s) 1390
BtsCI GGATG 2 cut(s) 349, 742
BtsI GCAGTG 1 cut(s) 1054
BtsIMutI CAGTG 3 cut(s) 517, 1054, 1326
BveI ACCTGC 2 cut(s) 595, 1115
Cac8I GCNNGC 4 cut(s) 6, 567, 908, 1119
CciI TCATGA 1 cut(s) 937
CfoI GCGC 3 cut(s) 98, 116, 216
Cfr13I GGNCC 2 cut(s) 159, 1139
CseI GACGC 1 cut(s) 440
Csp6I GTAC 4 cut(s) 202, 376, 690, 1288
CviQI GTAC 4 cut(s) 202, 376, 690, 1288
DdeI CTNAG 4 cut(s) 395, 638, 1151, 1245
DpnI GATC 7 cut(s) 1134, 1373, 1388, 1425, 1569, 1590, 1603
DpnII GATC 7 cut(s) 1132, 1371, 1386, 1423, 1567, 1588, 1601
Eco130I CCWWGG 4 cut(s) 88, 895, 1390, 1623
Eco147I AGGCCT 1 cut(s) 1622
Eco47I GGWCC 1 cut(s) 159
Eco47III AGCGCT 1 cut(s) 97
Eco57I CTGAAG 3 cut(s) 498, 717, 1530
Eco88I CYCGRG 1 cut(s) 172
EcoO109I RGGNCCY 1 cut(s) 159
EcoRI GAATTC 1 cut(s) 538
EcoRII CCWGG 2 cut(s) 746, 1135
EcoT14I CCWWGG 4 cut(s) 88, 895, 1390, 1623
EcoT22I ATGCAT 2 cut(s) 6, 1171
ErhI CCWWGG 4 cut(s) 88, 895, 1390, 1623
FalI AAGNNNNNCTT 2 cut(s) 254, 286
Fnu4HI GCNGC 4 cut(s) 94, 388, 1122, 1410
FokI GGATG 2 cut(s) 356, 749
Fsp4HI GCNGC 4 cut(s) 94, 388, 1122, 1410
FspBI CTAG 1 cut(s) 17
GlaI GCGC 3 cut(s) 97, 115, 215
GluI GCNGC 4 cut(s) 94, 388, 1122, 1410
HaeII RGCGCY 2 cut(s) 99, 117
HaeIII GGCC 3 cut(s) 1141, 1254, 1622
HapII CCGG 1 cut(s) 465
HgaI GACGC 1 cut(s) 440
HhaI GCGC 3 cut(s) 98, 116, 216
Hin6I GCGC 3 cut(s) 96, 114, 214
HinP1I GCGC 3 cut(s) 96, 114, 214
HincII GTYRAC 1 cut(s) 259
HindII GTYRAC 1 cut(s) 259
HindIII AAGCTT 3 cut(s) 904, 1471, 1521
HinfI GANTC 4 cut(s) 145, 170, 886, 1065
HpaI GTTAAC 1 cut(s) 259
HpaII CCGG 1 cut(s) 465
HphI GGTGA 4 cut(s) 556, 911, 1453, 1694
Hpy166II GTNNAC 2 cut(s) 259, 376
Hpy188I TCNGA 3 cut(s) 478, 657, 1003
Hpy188III TCNNGA 7 cut(s) 122, 667, 938, 1130, 1265, 1605, 1655
Hpy8I GTNNAC 2 cut(s) 259, 376
HpyAV CCTTC 6 cut(s) 473, 594, 1244, 1433, 1474, 1505
HpyCH4III ACNGT 1 cut(s) 1321
HpyCH4IV ACGT 2 cut(s) 378, 674
HpyF10VI GCNNNNNNNGC 2 cut(s) 1044, 1147
HpyF3I CTNAG 4 cut(s) 395, 638, 1151, 1245
HpySE526I ACGT 2 cut(s) 378, 674
HspAI GCGC 3 cut(s) 96, 114, 214
KspAI GTTAAC 1 cut(s) 259
Kzo9I GATC 7 cut(s) 1132, 1371, 1386, 1423, 1567, 1588, 1601
LmnI GCTCC 1 cut(s) 647
Lsp1109I GCAGC 2 cut(s) 105, 1108
LweI GCATC 4 cut(s) 201, 807, 1137, 1156
MaeI CTAG 1 cut(s) 17
MaeII ACGT 2 cut(s) 378, 674
MaeIII GTNAC 4 cut(s) 398, 544, 1459, 1504
MalI GATC 7 cut(s) 1134, 1373, 1388, 1425, 1569, 1590, 1603
MboI GATC 7 cut(s) 1132, 1371, 1386, 1423, 1567, 1588, 1601
MboII GAAGA 3 cut(s) 710, 719, 926
MfeI CAATTG 1 cut(s) 252
MflI RGATCY 2 cut(s) 1386, 1601
MhlI GDGCHC 1 cut(s) 1189
MluCI AATT 9 cut(s) 252, 321, 538, 683, 989, 1007, 1177, 1551, 1561
MlyI GAGTC 2 cut(s) 164, 1059
MmeI TCCRAC 2 cut(s) 945, 1078
MnlI CCTC 9 cut(s) 50, 364, 726, 1035, 1240, 1282, 1369, 1536, 1612
Mph1103I ATGCAT 2 cut(s) 6, 1171
MseI TTAA 6 cut(s) 258, 624, 851, 1280, 1329, 1469
MslI CAYNNNNRTG 2 cut(s) 615, 942
MspCI CTTAAG 1 cut(s) 1468
MspI CCGG 1 cut(s) 465
MspR9I CCNGG 3 cut(s) 466, 748, 1137
MunI CAATTG 1 cut(s) 252
MvaI CCWGG 2 cut(s) 748, 1137
MvnI CGCG 2 cut(s) 216, 1412
MwoI GCNNNNNNNGC 2 cut(s) 1044, 1147
NciI CCSGG 1 cut(s) 466
NcoI CCATGG 1 cut(s) 1390
NdeII GATC 7 cut(s) 1132, 1371, 1386, 1423, 1567, 1588, 1601
NlaIV GGNNCC 3 cut(s) 161, 534, 1388
NmuCI GTSAC 3 cut(s) 544, 1459, 1504
NsiI ATGCAT 2 cut(s) 6, 1171
NspI RCATGY 2 cut(s) 8, 1288
NspV TTCGAA 1 cut(s) 776
PaeI GCATGC 1 cut(s) 8
PagI TCATGA 1 cut(s) 937
PceI AGGCCT 1 cut(s) 1622
PciI ACATGT 1 cut(s) 1284
PfeI GAWTC 2 cut(s) 145, 886
PflMI CCANNNNNTGG 2 cut(s) 141, 1539
PfoI TCCNGGA 1 cut(s) 746
PkrI GCNGC 4 cut(s) 95, 389, 1123, 1411
PleI GAGTC 2 cut(s) 164, 1059
PpsI GAGTC 2 cut(s) 164, 1059
Ppu21I YACGTR 1 cut(s) 379
PpuMI RGGWCCY 1 cut(s) 159
PscI ACATGT 1 cut(s) 1284
PshAI GACNNNNGTC 1 cut(s) 174
PsiI TTATAA 1 cut(s) 863
Psp5II RGGWCCY 1 cut(s) 159
Psp6I CCWGG 2 cut(s) 746, 1135
PspGI CCWGG 2 cut(s) 746, 1135
PspN4I GGNNCC 3 cut(s) 161, 534, 1388
PspPI GGNCC 2 cut(s) 159, 1139
PspPPI RGGWCCY 1 cut(s) 159
PsrI GAACNNNNNNTAC 2 cut(s) 62, 94
PstI CTGCAG 1 cut(s) 1126
PsuI RGATCY 2 cut(s) 1386, 1601
RsaI GTAC 4 cut(s) 203, 377, 691, 1289
RsaNI GTAC 4 cut(s) 202, 376, 690, 1288
RseI CAYNNNNRTG 2 cut(s) 615, 942
SaqAI TTAA 6 cut(s) 258, 624, 851, 1280, 1329, 1469
SatI GCNGC 4 cut(s) 94, 388, 1122, 1410
Sau3AI GATC 7 cut(s) 1132, 1371, 1386, 1423, 1567, 1588, 1601
Sau96I GGNCC 2 cut(s) 159, 1139
SchI GAGTC 2 cut(s) 164, 1059
ScrFI CCNGG 3 cut(s) 466, 748, 1137
SduI GDGCHC 1 cut(s) 1189
SfaNI GCATC 4 cut(s) 201, 807, 1137, 1156
SfcI CTRYAG 3 cut(s) 855, 1122, 1317
SfuI TTCGAA 1 cut(s) 776
SinI GGWCC 1 cut(s) 159
SmiMI CAYNNNNRTG 2 cut(s) 615, 942
SmlI CTYRAG 2 cut(s) 667, 1468
SmoI CTYRAG 2 cut(s) 667, 1468
SphI GCATGC 1 cut(s) 8
Sse9I AATT 9 cut(s) 252, 321, 538, 683, 989, 1007, 1177, 1551, 1561
SseBI AGGCCT 1 cut(s) 1622
SsiI CCGC 3 cut(s) 266, 387, 1410
SspI AATATT 1 cut(s) 754
SspMI CTAG 1 cut(s) 17
StuI AGGCCT 1 cut(s) 1622
StyD4I CCNGG 3 cut(s) 464, 746, 1135
StyI CCWWGG 4 cut(s) 88, 895, 1390, 1623
TaaI ACNGT 1 cut(s) 1321
TaiI ACGT 2 cut(s) 381, 677
TaqI TCGA 4 cut(s) 455, 705, 776, 1374
TasI AATT 9 cut(s) 252, 321, 538, 683, 989, 1007, 1177, 1551, 1561
TatI WGTACW 2 cut(s) 201, 1287
TauI GCSGC 2 cut(s) 390, 1412
TfiI GAWTC 2 cut(s) 145, 886
Tru1I TTAA 6 cut(s) 258, 624, 851, 1280, 1329, 1469
Tru9I TTAA 6 cut(s) 258, 624, 851, 1280, 1329, 1469
TscAI CASTG 3 cut(s) 517, 1054, 1326
TseFI GTSAC 3 cut(s) 544, 1459, 1504
TseI GCWGC 2 cut(s) 93, 1121
Tsp45I GTSAC 3 cut(s) 544, 1459, 1504
TspGWI ACGGA 1 cut(s) 1254
TspRI CASTG 3 cut(s) 517, 1054, 1326
Van91I CCANNNNNTGG 2 cut(s) 141, 1539
Vha464I CTTAAG 1 cut(s) 1468
VpaK11BI GGWCC 1 cut(s) 159
XapI RAATTY 2 cut(s) 538, 1177
XceI RCATGY 2 cut(s) 8, 1288
XspI CTAG 1 cut(s) 17
Zsp2I ATGCAT 2 cut(s) 6, 1171
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.