RLG00000020563

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr4
OG0015328
Physical Location & Seq
Forward (+)
66306578 .. 66308038
1461 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000020563

Sequence Viewer

Length: 1461 bp
ATGAAAGACCTCCAGAAAATCCATGCCCACCTCATCAAAACTGGCCTAGCCAATGACACAGTTGCCGCCAGCCGTGTCTTGGCCTTTTGTGCCTCCCCAGCCGGAAACATCAACTATGCCTACATGGTTTTCAGACATATCCAGAACCCAAACCTCTTCATCTGGAACACCATCATTAGAGGTTTCTCTAACAGCTCAAACCCTGAAGCTGCCATCTCTCTTTTCATTGACATGTTGGTCACTTCAGCTATCCAGCCACAAAGTTTGACTTACCCTTCAGTTTTCAAGGCTTATGCTCAAGTGGGTCTTGCCCGTGATGGAGCTCAGCTTCATGGGAGAGTTGTGAAGTTGGGTCTTGAAAGGGACCAGTTTATAAGGAACACCATCATACATATGTACTCAAAGTGTGGCTTTTTGAGTGAAGCAAAAACAGTGTTTGATGAAGAGTTGGAATTTGACATTGTTGCATGGAATTCTATGGTAATGGGCCTTTCCAAATGTGGTGAAGTCAGTGAATCTAGAAGGCTGTTTGATAAAATGCCTCGAAGGAATTCGATTTCTTGGAATTCGATGATTGGTGGATATGTTAGGAATGGAATGTACACAGAAGCTTTGGATCTTTATGGTGAAATGCAGAAGGAGAAGATAAAGCCTAGTGAATTTACAATGGTGAGCCTGTTGAATGCTTCAGCTCGGTTAGGAGCAATTAGACAAGGGGAGTGGATTCATGAATATATAAGGAAAAATCACATTCAACTCAATCCCATTGTTGTAACAGCAATCATCAATATGTATTGCAAGTGTGGAAGCATTGAAAAAGCTGTTCAGGTGTTTGAGGCAGCTCCTAGAACAGGGTTATCTTGTTGGAACTCCATTATTATGGGGTTAGCAACTAATGGTTGTGCAGAAGAAGCAATAGAGCTATTCTCAAGGCTTGAATCTTCCAGTTTTGTACCCAATGATGTCAGTTTTCTTGGTGTTCTAACTGCATGTAGTCACTCGGGGATGGTGGAGAAAGCAAGGAAGTATTTTTCAGTAATGAGAGAAACATATAAGATTGCACCATCCATTAAGCACTATAGTTGCATGGTTGATGTGTTAGGCAGAGCTGGACTTCTTGAAGAAGCTGAGAAGCTCATAGATGGTATGCCAATAAAAGCCGATGCGATTATTTGGGGTTCTTTGCTGTCATCTTGTAGGAAGCACAGAGACATTGAGATGGCTAAGCGGGCAGCAAAGCATGTAACTGAGTTGGATCCAAGTGACAGTTGTGGTTATGTGTTAATGTCAAATGTTTATGCTGCCTCTAGTCAATTTCAGGAAGCAATGCAGGAAAGGCTTTCAATGAGAGAGCAGAAGATTGAGAAAGAACCGGGATGTAGTCTGATCGAAGTGGATGGAGAGGTTCATGAGTTTATAGCTGGTGGAAGGCTGCATCAGAAAGCCCCAGAGATTTATTAA

Protein Analysis

487

Amino Acids

54.32

Weight (kDa)

7.18

Isoelectric Point (pI)

45.46

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 50 - 99 2.1e-07 PPR repeat family
PPR PF01535 155 - 184 2.4e-06 PPR repeat
PPR_2 PF13041 184 - 231 1.8e-13 PPR repeat family
PPR PF01535 186 - 215 1.2e-09 PPR repeat
PPR_2 PF13041 288 - 332 5e-06 PPR repeat family
E_motif PF20431 402 - 464 1.3e-14 E motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0015328)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G42920 AT2G42920
fragaria_vesca FvH4_6g38310
malus_domestica MD09G1151200.v1.1 MD17G1138800.v1.1
prunus_persica Prupe.3G173600_v2.0.a1
pyrus_communis pycom17g13190
rosa_chinensis RchiOBHm_Chr2g0151611
rosa_laevigata RLG00000020563
rosa_multiflora Rmu_sc0005287.1_g000006
rosa_roxburghii Rroxscaffold_2G00096320
rosa_rugosa Rorug02G0427200
rosa_samantha Rh2AG488100 Rh2BG500700 Rh2CG474600
rosa_wichuraiana Rw2G040010

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 374
AasI GACNNNNNNGTC 1 cut(s) 236
AciI CCGC 2 cut(s) 66, 1228
AclWI GGATC 3 cut(s) 624, 1250, 1263
AcsI RAATTY 5 cut(s) 452, 472, 550, 565, 659
AcuI CTGAAG 4 cut(s) 225, 228, 261, 672
AfaI GTAC 3 cut(s) 398, 602, 954
AfiI CCNNNNNNNGG 2 cut(s) 79, 851
AflIII ACRYGT 1 cut(s) 231
AgsI TTSAA 8 cut(s) 286, 359, 682, 755, 815, 938, 1121, 1344
Alw21I GWGCWC 1 cut(s) 325
Alw26I GTCTC 1 cut(s) 1203
AlwI GGATC 3 cut(s) 624, 1250, 1263
Ama87I CYCGRG 1 cut(s) 1000
AoxI GGCC 3 cut(s) 43, 81, 487
ApeKI GCWGC 5 cut(s) 209, 839, 1232, 1301, 1432
ApoI RAATTY 5 cut(s) 452, 472, 550, 565, 659
Asp700I GAANNNNTTC 1 cut(s) 550
AspS9I GGNCC 2 cut(s) 364, 487
AsuC2I CCSGG 1 cut(s) 1374
AsuHPI GGTGA 3 cut(s) 515, 638, 682
AvaI CYCGRG 1 cut(s) 1000
AvaII GGWCC 1 cut(s) 364
BamHI GGATCC 1 cut(s) 1255
BanII GRGCYC 1 cut(s) 325
Bbv12I GWGCWC 1 cut(s) 325
BbvI GCAGC 5 cut(s) 196, 851, 1244, 1288, 1419
BccI CCATC 9 cut(s) 179, 221, 311, 392, 1000, 1072, 1136, 1213, 1391
BceAI ACGGC 1 cut(s) 57
BcnI CCSGG 1 cut(s) 1374
BcoDI GTCTC 1 cut(s) 1203
BfaI CTAG 5 cut(s) 47, 519, 654, 846, 1308
BfmI CTRYAG 1 cut(s) 1078
BisI GCNGC 6 cut(s) 66, 210, 840, 1233, 1302, 1433
BlpI GCTNAGC 2 cut(s) 324, 1224
BlsI GCNGC 6 cut(s) 67, 211, 841, 1234, 1303, 1434
Bme1390I CCNGG 1 cut(s) 1374
Bme18I GGWCC 1 cut(s) 364
BmeT110I CYCGRG 1 cut(s) 1000
BmgT120I GGNCC 2 cut(s) 364, 487
BmiI GGNNCC 2 cut(s) 365, 1257
BmrFI CCNGG 1 cut(s) 1374
BmsI GCATC 2 cut(s) 1153, 1444
BplI GAGNNNNNCTC 2 cut(s) 911, 943
Bpu1102I GCTNAGC 2 cut(s) 324, 1224
BpuEI CTTGAG 2 cut(s) 282, 913
BpuMI CCSGG 1 cut(s) 1374
Bsc4I CCNNNNNNNGG 2 cut(s) 79, 851
Bse1I ACTGG 3 cut(s) 46, 367, 945
Bse3DI GCAATG 1 cut(s) 1332
BseGI GGATG 4 cut(s) 1011, 1064, 1382, 1402
BseLI CCNNNNNNNGG 2 cut(s) 79, 851
BseMI GCAATG 1 cut(s) 1332
BseMII CTCAG 3 cut(s) 338, 1119, 1239
BseNI ACTGG 3 cut(s) 46, 367, 945
BseXI GCAGC 5 cut(s) 196, 851, 1244, 1288, 1419
BseYI CCCAGC 1 cut(s) 97
BsgI GTGCAG 1 cut(s) 924
BshFI GGCC 3 cut(s) 45, 83, 489
BsiHKAI GWGCWC 1 cut(s) 325
BsiHKCI CYCGRG 1 cut(s) 1000
BsiSI CCGG 2 cut(s) 102, 1373
BslFI GGGAC 1 cut(s) 377
BslI CCNNNNNNNGG 2 cut(s) 79, 851
BsmAI GTCTC 1 cut(s) 1203
BsmFI GGGAC 1 cut(s) 377
BsmI GAATGC 1 cut(s) 688
BsnI GGCC 3 cut(s) 45, 83, 489
BsoBI CYCGRG 1 cut(s) 1000
Bsp1286I GDGCHC 1 cut(s) 325
Bsp1407I TGTACA 1 cut(s) 600
Bsp143I GATC 3 cut(s) 616, 1255, 1386
Bsp1720I GCTNAGC 2 cut(s) 324, 1224
BspACI CCGC 2 cut(s) 66, 1228
BspANI GGCC 3 cut(s) 45, 83, 489
BspCNI CTCAG 3 cut(s) 337, 1120, 1240
BspHI TCATGA 2 cut(s) 727, 1408
BspLI GGNNCC 2 cut(s) 365, 1257
BspPI GGATC 3 cut(s) 624, 1250, 1263
BsrDI GCAATG 1 cut(s) 1332
BsrGI TGTACA 1 cut(s) 600
BsrI ACTGG 3 cut(s) 46, 367, 945
BssMI GATC 3 cut(s) 616, 1255, 1386
Bst4CI ACNGT 3 cut(s) 61, 433, 1268
Bst6I CTCTTC 2 cut(s) 161, 438
BstAUI TGTACA 1 cut(s) 600
BstC8I GCNNGC 2 cut(s) 70, 1230
BstDEI CTNAG 4 cut(s) 324, 1128, 1224, 1248
BstENI CCTNNNNNAGG 1 cut(s) 849
BstF5I GGATG 4 cut(s) 1011, 1064, 1382, 1402
BstKTI GATC 3 cut(s) 619, 1258, 1389
BstMAI GTCTC 1 cut(s) 1203
BstMBI GATC 3 cut(s) 616, 1255, 1386
BstMWI GCNNNNNNNGC 5 cut(s) 89, 98, 911, 1229, 1336
BstNSI RCATGY 3 cut(s) 235, 993, 1244
BstSCI CCNGG 1 cut(s) 1372
BstSFI CTRYAG 1 cut(s) 1078
BstV1I GCAGC 5 cut(s) 196, 851, 1244, 1288, 1419
BstX2I RGATCY 2 cut(s) 616, 1255
BstXI CCANNNNNNTGG 1 cut(s) 880
BstYI RGATCY 2 cut(s) 616, 1255
BsuRI GGCC 3 cut(s) 45, 83, 489
BtsCI GGATG 4 cut(s) 1011, 1064, 1382, 1402
BtsIMutI CAGTG 2 cut(s) 438, 517
Cac8I GCNNGC 2 cut(s) 70, 1230
CciI TCATGA 2 cut(s) 727, 1408
Cfr13I GGNCC 2 cut(s) 364, 487
Csp6I GTAC 3 cut(s) 397, 601, 953
CspCI CAANNNNNGTGG 4 cut(s) 246, 281, 701, 736
CviQI GTAC 3 cut(s) 397, 601, 953
DdeI CTNAG 4 cut(s) 324, 1128, 1224, 1248
DpnI GATC 3 cut(s) 618, 1257, 1388
DpnII GATC 3 cut(s) 616, 1255, 1386
DrdI GACNNNNNNGTC 1 cut(s) 236
DseDI GACNNNNNNGTC 1 cut(s) 236
Eam1104I CTCTTC 2 cut(s) 161, 438
EarI CTCTTC 2 cut(s) 161, 438
Ecl136II GAGCTC 1 cut(s) 323
Eco24I GRGCYC 1 cut(s) 325
Eco47I GGWCC 1 cut(s) 364
Eco53kI GAGCTC 1 cut(s) 323
Eco57I CTGAAG 4 cut(s) 225, 228, 261, 672
Eco88I CYCGRG 1 cut(s) 1000
EcoICRI GAGCTC 1 cut(s) 323
EcoNI CCTNNNNNAGG 1 cut(s) 849
EcoRI GAATTC 3 cut(s) 472, 550, 565
EcoT38I GRGCYC 1 cut(s) 325
FalI AAGNNNNNCTT 6 cut(s) 253, 285, 291, 323, 395, 427
FaqI GGGAC 1 cut(s) 377
FauI CCCGC 1 cut(s) 1221
FauNDI CATATG 1 cut(s) 393
Fnu4HI GCNGC 6 cut(s) 66, 210, 840, 1233, 1302, 1433
FokI GGATG 4 cut(s) 1018, 1051, 1389, 1409
FriOI GRGCYC 1 cut(s) 325
Fsp4HI GCNGC 6 cut(s) 66, 210, 840, 1233, 1302, 1433
FspBI CTAG 5 cut(s) 47, 519, 654, 846, 1308
GluI GCNGC 6 cut(s) 66, 210, 840, 1233, 1302, 1433
GsaI CCCAGC 1 cut(s) 101
HaeIII GGCC 3 cut(s) 45, 83, 489
HapII CCGG 2 cut(s) 102, 1373
HindIII AAGCTT 1 cut(s) 609
HinfI GANTC 3 cut(s) 515, 724, 938
HpaII CCGG 2 cut(s) 102, 1373
HphI GGTGA 3 cut(s) 515, 638, 682
Hpy166II GTNNAC 1 cut(s) 603
Hpy188I TCNGA 3 cut(s) 134, 1386, 1440
Hpy188III TCNNGA 9 cut(s) 13, 142, 163, 356, 519, 728, 1118, 1319, 1409
Hpy8I GTNNAC 1 cut(s) 603
HpyAV CCTTC 5 cut(s) 285, 516, 540, 631, 1422
HpyCH4III ACNGT 3 cut(s) 61, 433, 1268
HpyCH4V TGCA 9 cut(s) 467, 634, 798, 905, 989, 1061, 1086, 1330, 1435
HpyF10VI GCNNNNNNNGC 5 cut(s) 89, 98, 911, 1229, 1336
HpyF3I CTNAG 4 cut(s) 324, 1128, 1224, 1248
Kzo9I GATC 3 cut(s) 616, 1255, 1386
LmnI GCTCC 3 cut(s) 320, 701, 847
Lsp1109I GCAGC 5 cut(s) 196, 851, 1244, 1288, 1419
LweI GCATC 2 cut(s) 1153, 1444
MaeI CTAG 5 cut(s) 47, 519, 654, 846, 1308
MaeIII GTNAC 5 cut(s) 238, 772, 995, 1243, 1262
MalI GATC 3 cut(s) 618, 1257, 1388
MboI GATC 3 cut(s) 616, 1255, 1386
MboII GAAGA 7 cut(s) 148, 455, 655, 920, 933, 1133, 1369
MflI RGATCY 2 cut(s) 616, 1255
MhlI GDGCHC 1 cut(s) 325
MluCI AATT 7 cut(s) 452, 472, 550, 565, 659, 705, 1313
MmeI TCCRAC 3 cut(s) 429, 845, 1233
MnlI CCTC 9 cut(s) 20, 41, 103, 164, 173, 552, 829, 1315, 1396
MroXI GAANNNNTTC 1 cut(s) 550
MseI TTAA 3 cut(s) 1071, 1283, 1459
MslI CAYNNNNRTG 5 cut(s) 230, 392, 788, 878, 1217
MspI CCGG 2 cut(s) 102, 1373
MspR9I CCNGG 1 cut(s) 1374
Mva1269I GAATGC 1 cut(s) 688
MwoI GCNNNNNNNGC 5 cut(s) 89, 98, 911, 1229, 1336
NciI CCSGG 1 cut(s) 1374
NdeI CATATG 1 cut(s) 393
NdeII GATC 3 cut(s) 616, 1255, 1386
NlaIV GGNNCC 2 cut(s) 365, 1257
NmuCI GTSAC 3 cut(s) 238, 995, 1262
NspI RCATGY 3 cut(s) 235, 993, 1244
PagI TCATGA 2 cut(s) 727, 1408
PciI ACATGT 1 cut(s) 231
PctI GAATGC 1 cut(s) 688
PdmI GAANNNNTTC 1 cut(s) 550
PfeI GAWTC 3 cut(s) 515, 724, 938
PkrI GCNGC 6 cut(s) 67, 211, 841, 1234, 1303, 1434
PscI ACATGT 1 cut(s) 231
PsiI TTATAA 1 cut(s) 374
Psp124BI GAGCTC 1 cut(s) 325
PspFI CCCAGC 1 cut(s) 97
PspN4I GGNNCC 2 cut(s) 365, 1257
PspPI GGNCC 2 cut(s) 364, 487
PsuI RGATCY 2 cut(s) 616, 1255
RsaI GTAC 3 cut(s) 398, 602, 954
RsaNI GTAC 3 cut(s) 397, 601, 953
RseI CAYNNNNRTG 5 cut(s) 230, 392, 788, 878, 1217
SacI GAGCTC 1 cut(s) 325
SaqAI TTAA 3 cut(s) 1071, 1283, 1459
SatI GCNGC 6 cut(s) 66, 210, 840, 1233, 1302, 1433
Sau3AI GATC 3 cut(s) 616, 1255, 1386
Sau96I GGNCC 2 cut(s) 364, 487
ScrFI CCNGG 1 cut(s) 1374
SduI GDGCHC 1 cut(s) 325
SfaNI GCATC 2 cut(s) 1153, 1444
SfcI CTRYAG 1 cut(s) 1078
SinI GGWCC 1 cut(s) 364
SmiMI CAYNNNNRTG 5 cut(s) 230, 392, 788, 878, 1217
SmlI CTYRAG 2 cut(s) 297, 928
SmoI CTYRAG 2 cut(s) 297, 928
Sse9I AATT 7 cut(s) 452, 472, 550, 565, 659, 705, 1313
SsiI CCGC 2 cut(s) 66, 1228
SspMI CTAG 5 cut(s) 47, 519, 654, 846, 1308
SstI GAGCTC 1 cut(s) 325
StyD4I CCNGG 1 cut(s) 1372
TaaI ACNGT 3 cut(s) 61, 433, 1268
TaqI TCGA 4 cut(s) 544, 554, 569, 1389
TasI AATT 7 cut(s) 452, 472, 550, 565, 659, 705, 1313
TatI WGTACW 2 cut(s) 396, 600
TauI GCSGC 1 cut(s) 68
TfiI GAWTC 3 cut(s) 515, 724, 938
Tru1I TTAA 3 cut(s) 1071, 1283, 1459
Tru9I TTAA 3 cut(s) 1071, 1283, 1459
TscAI CASTG 2 cut(s) 438, 517
TseFI GTSAC 3 cut(s) 238, 995, 1262
TseI GCWGC 5 cut(s) 209, 839, 1232, 1301, 1432
Tsp45I GTSAC 3 cut(s) 238, 995, 1262
TspDTI ATGAA 8 cut(s) 17, 148, 214, 320, 456, 716, 744, 1397
TspRI CASTG 2 cut(s) 438, 517
VpaK11BI GGWCC 1 cut(s) 364
XagI CCTNNNNNAGG 1 cut(s) 849
XapI RAATTY 5 cut(s) 452, 472, 550, 565, 659
XbaI TCTAGA 1 cut(s) 518
XceI RCATGY 3 cut(s) 235, 993, 1244
XcmI CCANNNNNNNNNTGG 1 cut(s) 76
XmnI GAANNNNTTC 1 cut(s) 550
XspI CTAG 5 cut(s) 47, 519, 654, 846, 1308
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.