RLG00000020733

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr4
OG0018902
Physical Location & Seq
Forward (+)
68053714 .. 68055968
2255 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000020733

Sequence Viewer

Length: 1470 bp
ATGTCTGCATATGCTAAAAATGGTAGGGTTGGTAATGCACGCCAAATGTTTGATACAATGTGTCACAGAAACTTGGTGTCTTGGAACACTATGATTGCAGGGTACCTGCATAATAATGAGGTCGAGAGAGCTTATGGGGTTTTTGTGAGAATGCCGGAAAGAGATCTCTTCTCATGGACTTTGATGATAACTTGCTGCACGCGGAATGGTGAGCTTGAGAGAGCCAGAGGACTGTTCAATTTGCTTCCGGATAAGCGCCATGCGGCCTGTTGGAATGCCATGATTGCAGGGTATGCGAAGAAGGGGAGGTTTGATGAGGCTAAGAGAATGTTTGATGAAATGCCGGCGAAAATTTTGGTTGGTGATTTGGATTCTGCTTGGCAGTTTTTTGAGAAGATTCCAGACCCGAATATTGTTTCTTGGGTTACAATGTTGTGTGGGTTTGCGCAAAATGGGAAGATTGCGCAGGCAGAGGACCTCTTTGAGCAGACGCCAAGTAGAAATGTGGTTGCTTGGAATGCAATGCTTGCAGGCTACATTCAAGACCACCAAATTGACAAGGCTGTGAAAATTTTTAGGGATATGCCAGAGATGGATTCTGTATCATGGACTACAATGATCAATGGGTATGTTAGAGTTGGCAAGGTTGACGAAGCAGGGGAATTGCTAAACCGGATGCCATACAAGAACATTGCAGCACAAACAGCAATGATATCTGGATATGCTCATAATGGAAGGATGGATGAAGCAAGTCAGATCTTCAATCAGATTGCTATTCGTGATGGTGTTTGTTGGAACACAATGGTTGCAGGCTATGCTAAGTGTGGCAGAATGGTTGAAGCTCTATCTCTTTTCAGAAAAATGACTAAGAACGATGTAGTTTCTTGGAATACTATGATAACTGGTTATGCTCAAGTAGGGAAGATGGATAAAGCCCTTCAAATCTTTGAGGAGATGGGCGAGAAGAACATAGTTTCTTGGAATTCTCTAATTACAGCTTTACAAGTGGGACGGCAACTTCACCATTTGGTTGTGACTGGCTATCTAAATGATTTGTTTGTCAGCAATGCCCTGATTACGATGTATGCTAAATGTGGAACGGTTGCAGTGGAGCTCTTTGAAGAGATGCTAATAGAAGGGGTGAATCCAGATCAACTGACCTTTGTTGGGGTGTTGTCTGGATGCAGTCACAGTGGGCTGGTTGATTGGGGATTAAAATTGTTTAAGAGCATGACTCAAGTTAACCTTATTGAACCTCTAGCTGAACACTATGCTTGCATGGTAGACTTGCTTGGCCGTGCAGGGACGTTAGAGGAAGCCTTTGAAATGCACTTTGTAGATTACCAGACTCTTTTGTTGGTGCATATACAAATTATTGGGGTCCTCTTGGTAGAGAACTCGTACATTTCCATGGACATGGCAGGAAAGAAGAAAGATGTTCCAAGTAATTTGGAGCATATGTGCAGATAA
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
PPR

Protein Analysis

490

Amino Acids

55.19

Weight (kDa)

5.98

Isoelectric Point (pI)

33.8

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 24 - 55 5e-06 PPR repeat family
PPR PF01535 26 - 55 4.4e-06 PPR repeat
PPR_2 PF13041 89 - 115 8.6e-07 PPR repeat family
PPR PF01535 90 - 115 1.3e-08 PPR repeat
PPR_1 PF12854 90 - 114 2.2e-06 PPR repeat
PPR_2 PF13041 167 - 197 6.7e-07 PPR repeat family
PPR_1 PF12854 198 - 226 2.2e-06 PPR repeat
PPR_2 PF13041 199 - 231 2e-07 PPR repeat family
PPR PF01535 201 - 230 5.9e-08 PPR repeat
PPR_2 PF13041 261 - 292 1.3e-06 PPR repeat family
PPR PF01535 263 - 292 9.3e-09 PPR repeat
PPR_3 PF13812 290 - 333 9e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 292 - 333 2.4e-10 PPR repeat family
PPR_1 PF12854 292 - 319 9.2e-08 PPR repeat
PPR PF01535 294 - 324 5e-10 PPR repeat
PPR_2 PF13041 353 - 396 5.2e-06 PPR repeat family
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: OG0018902)

Species Orthologous Gene IDs
malus_domestica MD08G1120800.v1.1
rosa_chinensis RchiOBHm_Chr0c36g0502901 RchiOBHm_Chr2g0153841
rosa_laevigata RLG00000020733
rosa_multiflora Rmu_co8043988.1_g000001 Rmu_sc0003887.1_g000016
rosa_roxburghii Rroxscaffold_6G00422800
rosa_samantha Rh2BG516000 Rh2DG528300

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 2 cut(s) 447, 465
Acc36I ACCTGC 1 cut(s) 114
Acc65I GGTACC 1 cut(s) 102
AccB1I GGYRCC 1 cut(s) 102
AccI GTMKAC 1 cut(s) 1284
AccII CGCG 1 cut(s) 202
AccIII TCCGGA 1 cut(s) 247
AciI CCGC 2 cut(s) 202, 263
AcoI YGGCCR 1 cut(s) 1294
AcsI RAATTY 3 cut(s) 351, 570, 982
AcyI GRCGYC 1 cut(s) 491
AfaI GTAC 2 cut(s) 104, 1403
AfiI CCNNNNNNNGG 1 cut(s) 1167
AgsI TTSAA 8 cut(s) 238, 542, 763, 839, 941, 1121, 1253, 1325
AluBI AGCT 6 cut(s) 131, 214, 842, 998, 1114, 1262
AluI AGCT 6 cut(s) 131, 214, 842, 998, 1114, 1262
Alw21I GWGCWC 1 cut(s) 1116
Aor13HI TCCGGA 1 cut(s) 247
AoxI GGCC 2 cut(s) 264, 1294
ApeKI GCWGC 2 cut(s) 195, 695
ApoI RAATTY 3 cut(s) 351, 570, 982
Asp718I GGTACC 1 cut(s) 102
AspLEI GCGC 3 cut(s) 258, 448, 466
AspS9I GGNCC 2 cut(s) 475, 1381
AsuHPI GGTGA 4 cut(s) 221, 374, 1013, 1153
AvaII GGWCC 2 cut(s) 475, 1381
BanI GGYRCC 1 cut(s) 102
BanII GRGCYC 1 cut(s) 1116
Bbv12I GWGCWC 1 cut(s) 1116
BbvI GCAGC 2 cut(s) 182, 707
BccI CCATC 5 cut(s) 586, 733, 776, 919, 949
BceAI ACGGC 2 cut(s) 1028, 1281
BclI TGATCA 1 cut(s) 618
BfaI CTAG 1 cut(s) 1259
BfoI RGCGCY 1 cut(s) 259
BfuAI ACCTGC 1 cut(s) 114
BglII AGATCT 2 cut(s) 163, 756
BisI GCNGC 3 cut(s) 196, 264, 696
BlsI GCNGC 3 cut(s) 197, 265, 697
Bme18I GGWCC 2 cut(s) 475, 1381
BmgT120I GGNCC 2 cut(s) 475, 1381
BmiI GGNNCC 2 cut(s) 104, 1382
BmsI GCATC 3 cut(s) 666, 1116, 1172
BplI GAGNNNNNCTC 2 cut(s) 1219, 1251
BpuEI CTTGAG 3 cut(s) 236, 897, 1221
BsaHI GRCGYC 1 cut(s) 491
BsaJI CCNNGG 1 cut(s) 1410
BsaWI WCCGGW 2 cut(s) 247, 672
BsaXI ACNNNNNCTCC 1 cut(s) 1445
Bsc4I CCNNNNNNNGG 1 cut(s) 1167
Bse118I RCCGGY 1 cut(s) 343
Bse1I ACTGG 2 cut(s) 907, 1042
Bse3DI GCAATG 4 cut(s) 528, 690, 714, 1072
BseAI TCCGGA 1 cut(s) 247
BseDI CCNNGG 1 cut(s) 1410
BseGI GGATG 4 cut(s) 681, 744, 748, 1187
BseLI CCNNNNNNNGG 1 cut(s) 1167
BseMI GCAATG 4 cut(s) 528, 690, 714, 1072
BseNI ACTGG 2 cut(s) 907, 1042
BseRI GAGGAG 1 cut(s) 965
BseXI GCAGC 2 cut(s) 182, 707
BsgI GTGCAG 2 cut(s) 181, 1320
Bsh1236I CGCG 1 cut(s) 202
BshFI GGCC 2 cut(s) 266, 1296
BshNI GGYRCC 1 cut(s) 102
BsiHKAI GWGCWC 1 cut(s) 1116
BsiSI CCGG 4 cut(s) 155, 248, 344, 673
BslFI GGGAC 2 cut(s) 1023, 1318
BslI CCNNNNNNNGG 1 cut(s) 1167
BsmFI GGGAC 2 cut(s) 1023, 1318
BsmI GAATGC 3 cut(s) 156, 280, 523
BsnI GGCC 2 cut(s) 266, 1296
Bsp1286I GDGCHC 1 cut(s) 1116
Bsp13I TCCGGA 1 cut(s) 247
Bsp143I GATC 4 cut(s) 163, 618, 756, 1150
Bsp19I CCATGG 1 cut(s) 1410
BspACI CCGC 2 cut(s) 202, 263
BspANI GGCC 2 cut(s) 266, 1296
BspEI TCCGGA 1 cut(s) 247
BspFNI CGCG 1 cut(s) 202
BspLI GGNNCC 2 cut(s) 104, 1382
BspMI ACCTGC 1 cut(s) 114
BspT107I GGYRCC 1 cut(s) 102
BsrDI GCAATG 4 cut(s) 528, 690, 714, 1072
BsrFI RCCGGY 1 cut(s) 343
BsrI ACTGG 2 cut(s) 907, 1042
BssAI RCCGGY 1 cut(s) 343
BssECI CCNNGG 1 cut(s) 1410
BssMI GATC 4 cut(s) 163, 618, 756, 1150
BssNI GRCGYC 1 cut(s) 491
BssT1I CCWWGG 1 cut(s) 1410
Bst4CI ACNGT 3 cut(s) 234, 1102, 1193
Bst6I CTCTTC 2 cut(s) 173, 1116
BstACI GRCGYC 1 cut(s) 491
BstAPI GCANNNNNTGC 3 cut(s) 293, 527, 815
BstC8I GCNNGC 8 cut(s) 40, 200, 345, 468, 528, 532, 811, 1276
BstDEI CTNAG 3 cut(s) 321, 819, 867
BstDSI CCRYGG 1 cut(s) 1410
BstF5I GGATG 4 cut(s) 681, 744, 748, 1187
BstFNI CGCG 1 cut(s) 202
BstH2I RGCGCY 1 cut(s) 259
BstHHI GCGC 3 cut(s) 258, 448, 466
BstKTI GATC 4 cut(s) 166, 621, 759, 1153
BstMBI GATC 4 cut(s) 163, 618, 756, 1150
BstMWI GCNNNNNNNGC 6 cut(s) 284, 293, 518, 527, 704, 815
BstUI CGCG 1 cut(s) 202
BstV1I GCAGC 2 cut(s) 182, 707
BstX2I RGATCY 2 cut(s) 163, 756
BstXI CCANNNNNNTGG 1 cut(s) 1417
BstYI RGATCY 2 cut(s) 163, 756
BsuRI GGCC 2 cut(s) 266, 1296
BtgI CCRYGG 1 cut(s) 1410
BtsCI GGATG 4 cut(s) 681, 744, 748, 1187
BtsI GCAGTG 1 cut(s) 1113
BtsIMutI CAGTG 2 cut(s) 1113, 1198
BveI ACCTGC 1 cut(s) 114
Cac8I GCNNGC 8 cut(s) 40, 200, 345, 468, 528, 532, 811, 1276
CfoI GCGC 3 cut(s) 258, 448, 466
Cfr10I RCCGGY 1 cut(s) 343
Cfr13I GGNCC 2 cut(s) 475, 1381
CseI GACGC 1 cut(s) 499
Csp6I GTAC 2 cut(s) 103, 1402
CviAII CATG 8 cut(s) 174, 260, 280, 606, 1231, 1279, 1411, 1417
CviQI GTAC 2 cut(s) 103, 1402
DdeI CTNAG 3 cut(s) 321, 819, 867
DpnI GATC 4 cut(s) 165, 620, 758, 1152
DpnII GATC 4 cut(s) 163, 618, 756, 1150
EaeI YGGCCR 1 cut(s) 1294
Eam1104I CTCTTC 2 cut(s) 173, 1116
EarI CTCTTC 2 cut(s) 173, 1116
Ecl136II GAGCTC 1 cut(s) 1114
Eco130I CCWWGG 1 cut(s) 1410
Eco24I GRGCYC 1 cut(s) 1116
Eco32I GATATC 1 cut(s) 714
Eco47I GGWCC 2 cut(s) 475, 1381
Eco53kI GAGCTC 1 cut(s) 1114
EcoICRI GAGCTC 1 cut(s) 1114
EcoO109I RGGNCCY 2 cut(s) 475, 1381
EcoRI GAATTC 1 cut(s) 982
EcoRV GATATC 1 cut(s) 714
EcoT14I CCWWGG 1 cut(s) 1410
EcoT38I GRGCYC 1 cut(s) 1116
ErhI CCWWGG 1 cut(s) 1410
FaeI CATG 8 cut(s) 177, 263, 283, 609, 1234, 1282, 1414, 1420
FalI AAGNNNNNCTT 2 cut(s) 1230, 1262
FaqI GGGAC 2 cut(s) 1023, 1318
FatI CATG 8 cut(s) 173, 259, 279, 605, 1230, 1278, 1410, 1416
FauNDI CATATG 2 cut(s) 10, 1458
FbaI TGATCA 1 cut(s) 618
FblI GTMKAC 1 cut(s) 1284
Fnu4HI GCNGC 3 cut(s) 196, 264, 696
FokI GGATG 4 cut(s) 688, 751, 755, 1194
FriOI GRGCYC 1 cut(s) 1116
Fsp4HI GCNGC 3 cut(s) 196, 264, 696
FspBI CTAG 1 cut(s) 1259
FspI TGCGCA 2 cut(s) 447, 465
GlaI GCGC 3 cut(s) 257, 447, 465
GluI GCNGC 3 cut(s) 196, 264, 696
HaeII RGCGCY 1 cut(s) 259
HaeIII GGCC 2 cut(s) 266, 1296
HapII CCGG 4 cut(s) 155, 248, 344, 673
HgaI GACGC 1 cut(s) 499
HhaI GCGC 3 cut(s) 258, 448, 466
Hin1I GRCGYC 1 cut(s) 491
Hin1II CATG 8 cut(s) 177, 263, 283, 609, 1234, 1282, 1414, 1420
Hin6I GCGC 3 cut(s) 256, 446, 464
HinP1I GCGC 3 cut(s) 256, 446, 464
HincII GTYRAC 2 cut(s) 649, 1243
HindII GTYRAC 2 cut(s) 649, 1243
HinfI GANTC 6 cut(s) 371, 397, 596, 1144, 1234, 1348
HpaI GTTAAC 1 cut(s) 1243
HpaII CCGG 4 cut(s) 155, 248, 344, 673
HphI GGTGA 4 cut(s) 221, 374, 1013, 1153
Hpy166II GTNNAC 3 cut(s) 649, 1243, 1285
Hpy188I TCNGA 3 cut(s) 756, 768, 857
Hpy188III TCNNGA 8 cut(s) 124, 248, 401, 542, 717, 779, 1148, 1179
Hpy8I GTNNAC 3 cut(s) 649, 1243, 1285
HpyAV CCTTC 4 cut(s) 295, 729, 947, 1130
HpyCH4III ACNGT 3 cut(s) 234, 1102, 1193
HpyCH4IV ACGT 1 cut(s) 1307
HpyF10VI GCNNNNNNNGC 6 cut(s) 284, 293, 518, 527, 704, 815
HpyF3I CTNAG 3 cut(s) 321, 819, 867
HpySE526I ACGT 1 cut(s) 1307
Hsp92I GRCGYC 1 cut(s) 491
Hsp92II CATG 8 cut(s) 177, 263, 283, 609, 1234, 1282, 1414, 1420
HspAI GCGC 3 cut(s) 256, 446, 464
Kpn2I TCCGGA 1 cut(s) 247
KpnI GGTACC 1 cut(s) 106
KroI GCCGGC 1 cut(s) 343
KroNI GCCGGC 1 cut(s) 345
Ksp22I TGATCA 1 cut(s) 618
KspAI GTTAAC 1 cut(s) 1243
Kzo9I GATC 4 cut(s) 163, 618, 756, 1150
LmnI GCTCC 2 cut(s) 1111, 1453
Lsp1109I GCAGC 2 cut(s) 182, 707
LweI GCATC 3 cut(s) 666, 1116, 1172
MaeI CTAG 1 cut(s) 1259
MaeII ACGT 1 cut(s) 1307
MaeIII GTNAC 4 cut(s) 62, 424, 1033, 1187
MalI GATC 4 cut(s) 165, 620, 758, 1152
MboI GATC 4 cut(s) 163, 618, 756, 1150
MboII GAAGA 9 cut(s) 160, 310, 406, 469, 751, 934, 976, 1133, 1441
MflI RGATCY 2 cut(s) 163, 756
MhlI GDGCHC 1 cut(s) 1116
MlyI GAGTC 2 cut(s) 1228, 1342
MmeI TCCRAC 2 cut(s) 251, 773
MroI TCCGGA 1 cut(s) 247
MroNI GCCGGC 1 cut(s) 343
MseI TTAA 3 cut(s) 1214, 1224, 1242
MslI CAYNNNNRTG 3 cut(s) 114, 1409, 1415
MspI CCGG 4 cut(s) 155, 248, 344, 673
Mva1269I GAATGC 3 cut(s) 156, 280, 523
MvnI CGCG 1 cut(s) 202
MwoI GCNNNNNNNGC 6 cut(s) 284, 293, 518, 527, 704, 815
NaeI GCCGGC 1 cut(s) 345
NcoI CCATGG 1 cut(s) 1410
NdeI CATATG 2 cut(s) 10, 1458
NdeII GATC 4 cut(s) 163, 618, 756, 1150
NgoMIV GCCGGC 1 cut(s) 343
NlaIII CATG 8 cut(s) 177, 263, 283, 609, 1234, 1282, 1414, 1420
NlaIV GGNNCC 2 cut(s) 104, 1382
NmuCI GTSAC 3 cut(s) 62, 1033, 1187
NsbI TGCGCA 2 cut(s) 447, 465
PctI GAATGC 3 cut(s) 156, 280, 523
PdiI GCCGGC 1 cut(s) 345
PfeI GAWTC 4 cut(s) 371, 397, 596, 1144
PkrI GCNGC 3 cut(s) 197, 265, 697
PleI GAGTC 2 cut(s) 1228, 1342
PpsI GAGTC 2 cut(s) 1228, 1342
PpuMI RGGWCCY 2 cut(s) 475, 1381
Psp124BI GAGCTC 1 cut(s) 1116
Psp5II RGGWCCY 2 cut(s) 475, 1381
PspN4I GGNNCC 2 cut(s) 104, 1382
PspPI GGNCC 2 cut(s) 475, 1381
PspPPI RGGWCCY 2 cut(s) 475, 1381
PsuI RGATCY 2 cut(s) 163, 756
RsaI GTAC 2 cut(s) 104, 1403
RsaNI GTAC 2 cut(s) 103, 1402
RseI CAYNNNNRTG 3 cut(s) 114, 1409, 1415
SacI GAGCTC 1 cut(s) 1116
SaqAI TTAA 3 cut(s) 1214, 1224, 1242
SatI GCNGC 3 cut(s) 196, 264, 696
Sau3AI GATC 4 cut(s) 163, 618, 756, 1150
Sau96I GGNCC 2 cut(s) 475, 1381
SchI GAGTC 2 cut(s) 1228, 1342
SduI GDGCHC 1 cut(s) 1116
SfaNI GCATC 3 cut(s) 666, 1116, 1172
SinI GGWCC 2 cut(s) 475, 1381
SmiMI CAYNNNNRTG 3 cut(s) 114, 1409, 1415
SmlI CTYRAG 3 cut(s) 215, 912, 1236
SmoI CTYRAG 3 cut(s) 215, 912, 1236
SsiI CCGC 2 cut(s) 202, 263
SspI AATATT 1 cut(s) 412
SspMI CTAG 1 cut(s) 1259
SstI GAGCTC 1 cut(s) 1116
StyI CCWWGG 1 cut(s) 1410
TaaI ACNGT 3 cut(s) 234, 1102, 1193
TaiI ACGT 1 cut(s) 1310
TaqI TCGA 1 cut(s) 123
TauI GCSGC 1 cut(s) 266
TfiI GAWTC 4 cut(s) 371, 397, 596, 1144
Tru1I TTAA 3 cut(s) 1214, 1224, 1242
Tru9I TTAA 3 cut(s) 1214, 1224, 1242
TscAI CASTG 2 cut(s) 1113, 1198
TseFI GTSAC 3 cut(s) 62, 1033, 1187
TseI GCWGC 2 cut(s) 195, 695
Tsp45I GTSAC 3 cut(s) 62, 1033, 1187
TspDTI ATGAA 2 cut(s) 351, 759
TspRI CASTG 2 cut(s) 1113, 1198
VpaK11BI GGWCC 2 cut(s) 475, 1381
XapI RAATTY 3 cut(s) 351, 570, 982
XmiI GTMKAC 1 cut(s) 1284
XspI CTAG 1 cut(s) 1259
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.