RLG00000009647

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr2
OG0006945
Physical Location & Seq
Forward (+)
55859631 .. 55863346
3716 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000009647

Sequence Viewer

Length: 1428 bp
ATGGTCATGGCCACTGTCAAGAAGGGTAAGCCTGATTTGAGGAAGAAGGTCCTGCCGGCTGTCATTGTCAGGCAGCGCAAGCCCAGGCGCCGAAAGGATGGTGTCTTCATGTACTTCGAAGGTCAGTTGCTTTTACTTGTTGTGTTGCAATCTTGTGCATTTTTAGTGCTTTGTGGGAAGATTGCGCAGGCGGAGGATTTGTTTGAGAAGATGCCTAGTAGAAATGTGGTTGCTTGGAATGCAATGCTTGCAGCCTATGTACAAGAACAAGACCACCAAATTGACAAGGCTGTTGAAATGTTTAGGGATATACCGGAGATGGATTCAGTGTCATGGACTACAATGATCAATGGGTATGTTCGCGTTGGGAAGGTTGACAAAGCAAGGCAGTTGCTGAACCGGATGCCGTACAAGAACATTGCTGCACAAACAGCAATGATATCTGGATATGCTTATAATGGACGGATGGATGATGCAAGTCAGATCTTCAATCAGATTGCCATGCGTGATGTTGTTTGTTGGAACACCATGATTGCAGGCTATGCTCAGTGTGGCAGAATGGTTGAAGCTCTATCTCTTTTCAGAAACATGACCAACAGAGATGTAGTTTCTTGGAATACTCTGATTACTGGTTATGCTCAAGTAGGGGAGATGGACAAAGCACTTCAAATCTTCGAGGAGATGGGGGAGAAGAACATAGTTTCTTGGAACTCTCTAATTACAGGTTATGTCCAGAACGGTTTATATCTGGATGCACTGAAGAGTATTGTGATCATGGGACAGGAAGGAAAGAGGCTTGATCAGTCAACTTTTTCATGTGGTCTAAGTGCATGTGCCAATCTTGCAGCTTTGCGAGTGGGAAGGCAACTTCACCAAATGGTTGTGAAGACCGGCTATCTAACTGATTTGTTTGCCAGCAATGCCCTGATTACTATGTATGCTAAATGTGGAATGGTTGCGAATGCTAATCTTGTGTTTGAAGATATCAGTCATGGCGATATTGTTTCTTGGAATTCTTTGATATCTGGGTATGCTCTAAATGGATATGGTAAAGTGGCAGTAGCGCTCTTTGAACAGATGCTAATAGAAGGGGTGAATCCAGATCAAGTGACCTTTGGTGGGGTGTTGTCTGCATGCAGTCACAGTGGGCTGGTTGATCAGGGATTAAAACTGTTTAAGAGCATGACTGAAGTTCACCTTATTGAACCTCTAGCCGAACACTATGCTTGCATGGTTGACTTGCTTGGCCGCACAGGAAGGACGCGGACTGGAAACAAGTTCAGGATGTCACTGGGTCTGCCAGTGGCAGCCACAGTGAACTGTGCTGACAATACAGGAGCTAAGAACCTGTACATCATCCAAGTCAAGGGAATCAAGGGTCGTCTGAATCAGTTGCTTGCATTGGTGACATGGTCATGGCCACTGTGA
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

476

Amino Acids

52.73

Weight (kDa)

9.01

Isoelectric Point (pI)

31.53

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ribosomal_L14 PF00238 1 - 46 1.7e-08 Ribosomal protein L14p/L23e
PPR_1 PF12854 107 - 135 6.9e-07 PPR repeat
PPR_2 PF13041 108 - 140 9.8e-08 PPR repeat family
PPR PF01535 110 - 139 4.9e-08 PPR repeat
PPR_2 PF13041 169 - 201 3e-08 PPR repeat family
PPR_1 PF12854 170 - 198 1.1e-06 PPR repeat
PPR PF01535 172 - 201 3.3e-08 PPR repeat
PPR_2 PF13041 200 - 233 1.4e-09 PPR repeat family
PPR_1 PF12854 200 - 228 4.8e-08 PPR repeat
PPR_3 PF13812 200 - 245 3.6e-06 Pentatricopeptide repeat domain
PPR PF01535 203 - 233 2.5e-09 PPR repeat
PPR_2 PF13041 231 - 280 1.3e-06 PPR repeat family
PPR_2 PF13041 333 - 380 1.1e-10 PPR repeat family
PPR PF01535 335 - 365 1.6e-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
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 456
Acc16I TGCGCA 1 cut(s) 186
AccB1I GGYRCC 1 cut(s) 87
AccII CGCG 2 cut(s) 363, 1264
AciI CCGC 3 cut(s) 191, 1249, 1264
AcoI YGGCCR 3 cut(s) 9, 1246, 1418
AcsI RAATTY 1 cut(s) 1012
AcuI CTGAAG 2 cut(s) 779, 1209
AcyI GRCGYC 1 cut(s) 88
AfaI GTAC 4 cut(s) 113, 261, 410, 1352
AfeI AGCGCT 1 cut(s) 1065
AfiI CCNNNNNNNGG 2 cut(s) 1119, 1366
AgsI TTSAA 7 cut(s) 296, 490, 566, 668, 980, 1073, 1205
AjnI CCWGG 1 cut(s) 83
AluBI AGCT 3 cut(s) 569, 848, 1340
AluI AGCT 3 cut(s) 569, 848, 1340
AlwNI CAGNNNCTG 1 cut(s) 394
Aor51HI AGCGCT 1 cut(s) 1065
AoxI GGCC 3 cut(s) 9, 1246, 1418
ApeKI GCWGC 5 cut(s) 73, 251, 422, 845, 1307
ApoI RAATTY 1 cut(s) 1012
AspLEI GCGC 4 cut(s) 78, 90, 187, 1066
AspS9I GGNCC 1 cut(s) 49
AsuHPI GGTGA 4 cut(s) 863, 1105, 1187, 1417
AsuII TTCGAA 1 cut(s) 117
AvaII GGWCC 1 cut(s) 49
BalI TGGCCA 2 cut(s) 11, 1420
BanI GGYRCC 1 cut(s) 87
BbsI GAAGAC 2 cut(s) 97, 893
BbvI GCAGC 5 cut(s) 85, 263, 409, 857, 1319
BccI CCATC 5 cut(s) 92, 313, 460, 646, 676
BceAI ACGGC 1 cut(s) 391
BcgI CGANNNNNNTGC 2 cut(s) 1205, 1239
BciT130I CCWGG 1 cut(s) 85
BclI TGATCA 4 cut(s) 345, 771, 799, 1156
BfaI CTAG 2 cut(s) 216, 1211
BfoI RGCGCY 2 cut(s) 91, 1067
BglII AGATCT 1 cut(s) 483
BisI GCNGC 6 cut(s) 74, 252, 423, 846, 1249, 1308
BlsI GCNGC 6 cut(s) 75, 253, 424, 847, 1250, 1309
Bme1390I CCNGG 1 cut(s) 85
Bme18I GGWCC 1 cut(s) 49
BmgT120I GGNCC 1 cut(s) 49
BmiI GGNNCC 1 cut(s) 89
BmrFI CCNGG 1 cut(s) 85
BmrI ACTGGG 1 cut(s) 1301
BmsI GCATC 5 cut(s) 201, 393, 463, 742, 1068
BmuI ACTGGG 1 cut(s) 1301
BpiI GAAGAC 2 cut(s) 97, 893
Bpu14I TTCGAA 1 cut(s) 117
BpuEI CTTGAG 1 cut(s) 624
BsaHI GRCGYC 1 cut(s) 88
BsaJI CCNNGG 1 cut(s) 83
BsaWI WCCGGW 2 cut(s) 313, 399
BsaXI ACNNNNNCTCC 2 cut(s) 185, 215
Bsc4I CCNNNNNNNGG 2 cut(s) 1119, 1366
Bse118I RCCGGY 2 cut(s) 55, 890
Bse1I ACTGG 4 cut(s) 634, 1273, 1296, 1301
Bse3DI GCAATG 4 cut(s) 249, 417, 441, 925
BseBI CCWGG 1 cut(s) 85
BseDI CCNNGG 1 cut(s) 83
BseGI GGATG 7 cut(s) 103, 408, 471, 475, 757, 1290, 1356
BseLI CCNNNNNNNGG 2 cut(s) 1119, 1366
BseMI GCAATG 4 cut(s) 249, 417, 441, 925
BseMII CTCAG 1 cut(s) 560
BseNI ACTGG 4 cut(s) 634, 1273, 1296, 1301
BseRI GAGGAG 1 cut(s) 692
BseXI GCAGC 5 cut(s) 85, 263, 409, 857, 1319
BsgI GTGCAG 1 cut(s) 408
Bsh1236I CGCG 2 cut(s) 363, 1264
BshFI GGCC 3 cut(s) 11, 1248, 1420
BshNI GGYRCC 1 cut(s) 87
BsiSI CCGG 4 cut(s) 56, 314, 400, 891
BslFI GGGAC 1 cut(s) 792
BslI CCNNNNNNNGG 2 cut(s) 1119, 1366
BsmFI GGGAC 1 cut(s) 792
BsmI GAATGC 2 cut(s) 244, 967
BsnI GGCC 3 cut(s) 11, 1248, 1420
Bsp119I TTCGAA 1 cut(s) 117
Bsp1407I TGTACA 2 cut(s) 259, 1350
Bsp143I GATC 6 cut(s) 345, 483, 771, 799, 1102, 1156
BspACI CCGC 3 cut(s) 191, 1249, 1264
BspANI GGCC 3 cut(s) 11, 1248, 1420
BspCNI CTCAG 1 cut(s) 559
BspFNI CGCG 2 cut(s) 363, 1264
BspLI GGNNCC 1 cut(s) 89
BspT104I TTCGAA 1 cut(s) 117
BspT107I GGYRCC 1 cut(s) 87
BsrDI GCAATG 4 cut(s) 249, 417, 441, 925
BsrFI RCCGGY 2 cut(s) 55, 890
BsrGI TGTACA 2 cut(s) 259, 1350
BsrI ACTGG 4 cut(s) 634, 1273, 1296, 1301
BssAI RCCGGY 2 cut(s) 55, 890
BssECI CCNNGG 1 cut(s) 83
BssMI GATC 6 cut(s) 345, 483, 771, 799, 1102, 1156
BssNI GRCGYC 1 cut(s) 88
Bst2UI CCWGG 1 cut(s) 85
Bst4CI ACNGT 7 cut(s) 16, 740, 1145, 1173, 1315, 1322, 1425
Bst6I CTCTTC 1 cut(s) 755
BstACI GRCGYC 1 cut(s) 88
BstAPI GCANNNNNTGC 2 cut(s) 248, 542
BstAUI TGTACA 2 cut(s) 259, 1350
BstBI TTCGAA 1 cut(s) 117
BstC8I GCNNGC 9 cut(s) 57, 80, 189, 249, 538, 916, 1135, 1228, 1398
BstDEI CTNAG 3 cut(s) 546, 824, 1341
BstF5I GGATG 7 cut(s) 103, 408, 471, 475, 757, 1290, 1356
BstFNI CGCG 2 cut(s) 363, 1264
BstH2I RGCGCY 2 cut(s) 91, 1067
BstHHI GCGC 4 cut(s) 78, 90, 187, 1066
BstKTI GATC 6 cut(s) 348, 486, 774, 802, 1105, 1159
BstMBI GATC 6 cut(s) 345, 483, 771, 799, 1102, 1156
BstMWI GCNNNNNNNGC 7 cut(s) 79, 239, 248, 431, 542, 842, 920
BstNI CCWGG 1 cut(s) 85
BstNSI RCATGY 2 cut(s) 834, 1137
BstSCI CCNGG 1 cut(s) 83
BstUI CGCG 2 cut(s) 363, 1264
BstV1I GCAGC 5 cut(s) 85, 263, 409, 857, 1319
BstV2I GAAGAC 2 cut(s) 97, 893
BstX2I RGATCY 1 cut(s) 483
BstYI RGATCY 1 cut(s) 483
BsuRI GGCC 3 cut(s) 11, 1248, 1420
BtsCI GGATG 7 cut(s) 103, 408, 471, 475, 757, 1290, 1356
BtsIMutI CAGTG 9 cut(s) 12, 333, 554, 755, 1150, 1289, 1308, 1320, 1421
Cac8I GCNNGC 9 cut(s) 57, 80, 189, 249, 538, 916, 1135, 1228, 1398
CaiI CAGNNNCTG 1 cut(s) 394
CfoI GCGC 4 cut(s) 78, 90, 187, 1066
Cfr10I RCCGGY 2 cut(s) 55, 890
Cfr13I GGNCC 1 cut(s) 49
CseI GACGC 1 cut(s) 1270
Csp6I GTAC 4 cut(s) 112, 260, 409, 1351
CviQI GTAC 4 cut(s) 112, 260, 409, 1351
DdeI CTNAG 3 cut(s) 546, 824, 1341
DinI GGCGCC 1 cut(s) 89
DpnI GATC 6 cut(s) 347, 485, 773, 801, 1104, 1158
DpnII GATC 6 cut(s) 345, 483, 771, 799, 1102, 1156
EaeI YGGCCR 3 cut(s) 9, 1246, 1418
Eam1104I CTCTTC 1 cut(s) 755
EarI CTCTTC 1 cut(s) 755
EciI GGCGGA 1 cut(s) 206
Eco32I GATATC 3 cut(s) 441, 985, 1023
Eco47I GGWCC 1 cut(s) 49
Eco47III AGCGCT 1 cut(s) 1065
Eco57I CTGAAG 2 cut(s) 779, 1209
EcoO109I RGGNCCY 1 cut(s) 49
EcoRI GAATTC 1 cut(s) 1012
EcoRII CCWGG 1 cut(s) 83
EcoRV GATATC 3 cut(s) 441, 985, 1023
EgeI GGCGCC 1 cut(s) 89
EheI GGCGCC 1 cut(s) 89
FalI AAGNNNNNCTT 2 cut(s) 1182, 1214
FaqI GGGAC 1 cut(s) 792
FbaI TGATCA 4 cut(s) 345, 771, 799, 1156
Fnu4HI GCNGC 6 cut(s) 74, 252, 423, 846, 1249, 1308
FokI GGATG 7 cut(s) 110, 415, 478, 482, 764, 1297, 1343
Fsp4HI GCNGC 6 cut(s) 74, 252, 423, 846, 1249, 1308
FspBI CTAG 2 cut(s) 216, 1211
FspI TGCGCA 1 cut(s) 186
GlaI GCGC 4 cut(s) 77, 89, 186, 1065
GluI GCNGC 6 cut(s) 74, 252, 423, 846, 1249, 1308
HaeII RGCGCY 2 cut(s) 91, 1067
HaeIII GGCC 3 cut(s) 11, 1248, 1420
HapII CCGG 4 cut(s) 56, 314, 400, 891
HgaI GACGC 1 cut(s) 1270
HhaI GCGC 4 cut(s) 78, 90, 187, 1066
Hin1I GRCGYC 1 cut(s) 88
Hin6I GCGC 4 cut(s) 76, 88, 185, 1064
HinP1I GCGC 4 cut(s) 76, 88, 185, 1064
HincII GTYRAC 3 cut(s) 376, 807, 1237
HindII GTYRAC 3 cut(s) 376, 807, 1237
HinfI GANTC 4 cut(s) 323, 1096, 1371, 1387
HpaII CCGG 4 cut(s) 56, 314, 400, 891
HphI GGTGA 4 cut(s) 863, 1105, 1187, 1417
Hpy166II GTNNAC 5 cut(s) 376, 807, 1195, 1237, 1318
Hpy188I TCNGA 5 cut(s) 483, 495, 584, 624, 1386
Hpy188III TCNNGA 6 cut(s) 19, 444, 733, 749, 1100, 1282
Hpy8I GTNNAC 5 cut(s) 376, 807, 1195, 1237, 1318
HpyAV CCTTC 8 cut(s) 16, 40, 113, 364, 779, 855, 1082, 1251
HpyCH4III ACNGT 7 cut(s) 16, 740, 1145, 1173, 1315, 1322, 1425
HpyF10VI GCNNNNNNNGC 7 cut(s) 79, 239, 248, 431, 542, 842, 920
HpyF3I CTNAG 3 cut(s) 546, 824, 1341
Hsp92I GRCGYC 1 cut(s) 88
HspAI GCGC 4 cut(s) 76, 88, 185, 1064
KasI GGCGCC 1 cut(s) 87
KroI GCCGGC 1 cut(s) 55
KroNI GCCGGC 1 cut(s) 57
Ksp22I TGATCA 4 cut(s) 345, 771, 799, 1156
Kzo9I GATC 6 cut(s) 345, 483, 771, 799, 1102, 1156
LmnI GCTCC 1 cut(s) 1337
Lsp1109I GCAGC 5 cut(s) 85, 263, 409, 857, 1319
LweI GCATC 5 cut(s) 201, 393, 463, 742, 1068
MaeI CTAG 2 cut(s) 216, 1211
MaeIII GTNAC 4 cut(s) 1108, 1139, 1287, 1405
MalI GATC 6 cut(s) 347, 485, 773, 801, 1104, 1158
MboI GATC 6 cut(s) 345, 483, 771, 799, 1102, 1156
MflI RGATCY 1 cut(s) 483
MlsI TGGCCA 2 cut(s) 11, 1420
MluCI AATT 3 cut(s) 279, 717, 1012
MluNI TGGCCA 2 cut(s) 11, 1420
Mly113I GGCGCC 1 cut(s) 88
MmeI TCCRAC 1 cut(s) 500
MnlI CCTC 5 cut(s) 33, 187, 670, 786, 1218
Mox20I TGGCCA 2 cut(s) 11, 1420
MroNI GCCGGC 1 cut(s) 55
MscI TGGCCA 2 cut(s) 11, 1420
MseI TTAA 2 cut(s) 1166, 1176
MslI CAYNNNNRTG 1 cut(s) 1414
Msp20I TGGCCA 2 cut(s) 11, 1420
MspI CCGG 4 cut(s) 56, 314, 400, 891
MspR9I CCNGG 1 cut(s) 85
Mva1269I GAATGC 2 cut(s) 244, 967
MvaI CCWGG 1 cut(s) 85
MvnI CGCG 2 cut(s) 363, 1264
MwoI GCNNNNNNNGC 7 cut(s) 79, 239, 248, 431, 542, 842, 920
NaeI GCCGGC 1 cut(s) 57
NarI GGCGCC 1 cut(s) 88
NdeII GATC 6 cut(s) 345, 483, 771, 799, 1102, 1156
NgoMIV GCCGGC 1 cut(s) 55
NlaIV GGNNCC 1 cut(s) 89
NmuCI GTSAC 4 cut(s) 1108, 1139, 1287, 1405
NsbI TGCGCA 1 cut(s) 186
NspI RCATGY 2 cut(s) 834, 1137
NspV TTCGAA 1 cut(s) 117
PaeI GCATGC 1 cut(s) 1137
PctI GAATGC 2 cut(s) 244, 967
PdiI GCCGGC 1 cut(s) 57
PfeI GAWTC 4 cut(s) 323, 1096, 1371, 1387
PflFI GACNNNGTC 1 cut(s) 1411
PkrI GCNGC 6 cut(s) 75, 253, 424, 847, 1250, 1309
PluTI GGCGCC 1 cut(s) 91
PpuMI RGGWCCY 1 cut(s) 49
PsiI TTATAA 1 cut(s) 456
Psp5II RGGWCCY 1 cut(s) 49
Psp6I CCWGG 1 cut(s) 83
PspGI CCWGG 1 cut(s) 83
PspN4I GGNNCC 1 cut(s) 89
PspPI GGNCC 1 cut(s) 49
PspPPI RGGWCCY 1 cut(s) 49
PstNI CAGNNNCTG 1 cut(s) 394
PsuI RGATCY 1 cut(s) 483
PsyI GACNNNGTC 1 cut(s) 1411
RsaI GTAC 4 cut(s) 113, 261, 410, 1352
RsaNI GTAC 4 cut(s) 112, 260, 409, 1351
RseI CAYNNNNRTG 1 cut(s) 1414
SaqAI TTAA 2 cut(s) 1166, 1176
SatI GCNGC 6 cut(s) 74, 252, 423, 846, 1249, 1308
Sau3AI GATC 6 cut(s) 345, 483, 771, 799, 1102, 1156
Sau96I GGNCC 1 cut(s) 49
ScrFI CCNGG 1 cut(s) 85
SfaNI GCATC 5 cut(s) 201, 393, 463, 742, 1068
SfoI GGCGCC 1 cut(s) 89
SfuI TTCGAA 1 cut(s) 117
SinI GGWCC 1 cut(s) 49
SmiMI CAYNNNNRTG 1 cut(s) 1414
SmlI CTYRAG 1 cut(s) 639
SmoI CTYRAG 1 cut(s) 639
SphI GCATGC 1 cut(s) 1137
Sse9I AATT 3 cut(s) 279, 717, 1012
SsiI CCGC 3 cut(s) 191, 1249, 1264
SspDI GGCGCC 1 cut(s) 87
SspMI CTAG 2 cut(s) 216, 1211
StyD4I CCNGG 1 cut(s) 83
TaaI ACNGT 7 cut(s) 16, 740, 1145, 1173, 1315, 1322, 1425
TaqI TCGA 2 cut(s) 117, 675
TasI AATT 3 cut(s) 279, 717, 1012
TatI WGTACW 3 cut(s) 111, 259, 1350
TauI GCSGC 1 cut(s) 1251
TfiI GAWTC 4 cut(s) 323, 1096, 1371, 1387
Tru1I TTAA 2 cut(s) 1166, 1176
Tru9I TTAA 2 cut(s) 1166, 1176
TscAI CASTG 9 cut(s) 19, 333, 554, 762, 1150, 1296, 1308, 1320, 1428
TseFI GTSAC 4 cut(s) 1108, 1139, 1287, 1405
TseI GCWGC 5 cut(s) 73, 251, 422, 845, 1307
Tsp45I GTSAC 4 cut(s) 1108, 1139, 1287, 1405
TspDTI ATGAA 2 cut(s) 97, 804
TspGWI ACGGA 1 cut(s) 478
TspRI CASTG 9 cut(s) 19, 333, 554, 762, 1150, 1296, 1308, 1320, 1428
Tth111I GACNNNGTC 1 cut(s) 1411
VpaK11BI GGWCC 1 cut(s) 49
XapI RAATTY 1 cut(s) 1012
XceI RCATGY 2 cut(s) 834, 1137
XspI CTAG 2 cut(s) 216, 1211
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.