Rroxscaffold_5G00363920

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0016096
Physical Location & Seq
Reverse (-)
45214892 .. 45216885
1994 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00363920.1

Sequence Viewer

Length: 1647 bp
ATGAAAAAGCCGTTGAACCAAATCCTCCACCTCAGCGCCGCCTCTTCAAAACCAAACATTTCCCGCCAAAACCAACCGTCGCATTTTCACCTCATCCAACACCTCCTCCGCAACTGTAACGACTCCACCTCCGCAAACTCCATCCATTCCGTCGTGATAAAGTCTGGCTCTTTCTACGACTCTTTCACCGCCAATCATCTCATCAACTGCTACGTCAGGTTCGGCGGAATCGACTCTGCAGCCAAGGTGTTCGACGAAATGCCGGACCCAAACGTCGTGTCGTGGACGTCGCTTATCTCCGGCTACGTCAGCACGGATCGCCCGCGAGTGGGTCTGTGGCTGTTTGGGAGGATGCTGGAATGTTCGGTTCTGCCCAACGAGTTTACTTTCGCTACTGTCATTAATGCGTGTTCGGTGCTTGCTGATGTTGAAACCGGCAGAAAAATTCATGCCCGTGTTGAAATATTGGGTGTGCAAAAGAACCTTGTTGTGTGTTCCGCGCTGGTTGATATGTACGGGAAGTGCAATGATGTCGGTGGCGCTCGGCGGGTTTTTGAGTTGATGGGTGGGAGGAATGTTGTTACTTGGACTTCCATTATTGCTGCTTATGCCCAGAACGGACGAGGCGAGGATGCGCTCCAGCTTTTTAGGGAATTTAATCGTGGGATGATGGAGCGTCCGAATCATTTCATGTTGGCTAGTGTTGTAAATGCTTGTGCGAGCTTGGGTCGTTTAGTTTCTGGCAAAGTTGCACATGGAGCAGTGATTCGCCGTCGACATGATCTGAATGATGTGATTGCGAGTGCATTGGTTGACATGTATGCTAAATGTGGGAGTGTTGAGTATTCTGACAAGGTTTTCAGGCGAATCCCAAATCCCTCTGTAATAGCCTACACTTCGATGATTGTGGCTGCTGCGAAGTATGGATTGGGGAAAATGTCCCTTCAACTCTTTGAAGAAATGATCAATAGAAGAATAAAACCCAATGATGTCACCTTTGTTGGTGTCTTGCATGCTTGCAGCCATGCAGGGCTTGTGGATGAAGGGCTCCAACACTATGAATCTATGTATGAGAAACATGGAATATCCCCAAATGCAAAGCATCATACTTGCATTGTTGACATGCTTGGTCGAACTGGCCGTCTCAATGAGGCGTACGAACTGGCCAAATCCATCCAAGCAGAACCAAATCAACAAGCCTTGGTGTGGGGGACACTTCTTTCAGCGAGTAGGCTTCGTGGAAGGGTTGACATTGCTGTTGAAGCTAGCAGACGGCTAATAGATTCCAACCAACAGGTATCAGGTGCATATGTCACGTTGTCAAATGCTTATGCGTTGAGTGGAGAGTGGGAGACCGCTCATGATCTTCGATCAGAAATGAAGCGTACTGGGGTTAGGAAAGAACCCGGCTGCAGTTGGGTTGAGATTAAGGACTCAAATTATGTGTTCTATGCTGGAGATGTATCATCATGTGGACGCCGGAGTGAGGTGGTTACTTTGCTGAGGGAGTTGGAGGGTAAAATGAAACAAAGAGGATATGTAGGAGGGAGTATAGGATTGGTCTTTTTTGATGTAGAGGAGGAGGCCAAAGAGGAAATTATATCTTCAGCTTTGATAAAAGCCGCAATTTTCCGTACTCTATTCTAA

Protein Analysis

548

Amino Acids

60.62

Weight (kDa)

8.71

Isoelectric Point (pI)

40.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 90 - 137 4.1e-09 PPR repeat family
PPR_2 PF13041 191 - 219 5.6e-06 PPR repeat family
PPR PF01535 194 - 218 3.3e-06 PPR repeat
PPR_2 PF13041 293 - 341 5.1e-09 PPR repeat family
E_motif PF20431 416 - 475 1e-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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Publication-ready
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Orthologous Genes (Group: OG0016096)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G15720
fragaria_vesca FvH4_3g12520
malus_domestica MD13G1170500.v1.1
prunus_persica Prupe.1G138900_v2.0.a1
pyrus_communis pycom13g14610
rosa_chinensis RchiOBHm_Chr4g0421681
rosa_laevigata RLG00000007659
rosa_multiflora Rmu_sc0004533.1_g000011
rosa_roxburghii Rroxscaffold_5G00363920
rosa_rugosa Rorug04G0174600
rosa_samantha Rh4AG233900 Rh4BG237000 Rh4CG248800
rosa_wichuraiana Rw0G007720 Rw4G020010

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 272
AatII GACGTC 1 cut(s) 290
AccBSI CCGCTC 1 cut(s) 1358
AccI GTMKAC 1 cut(s) 775
AccII CGCG 2 cut(s) 325, 500
AclWI GGATC 1 cut(s) 324
AcoI YGGCCR 2 cut(s) 1138, 1164
AcsI RAATTY 2 cut(s) 444, 653
AcuI CTGAAG 1 cut(s) 1590
AcyI GRCGYC 2 cut(s) 287, 1477
AfaI GTAC 4 cut(s) 515, 1157, 1387, 1636
AfiI CCNNNNNNNGG 4 cut(s) 328, 329, 1206, 1486
AflIII ACRYGT 1 cut(s) 816
AgsI TTSAA 7 cut(s) 16, 48, 431, 461, 947, 956, 1262
AjuI GAANNNNNNNTTGG 2 cut(s) 911, 943
AluBI AGCT 4 cut(s) 643, 723, 1265, 1610
AluI AGCT 4 cut(s) 643, 723, 1265, 1610
Alw26I GTCTC 2 cut(s) 1148, 1346
AlwI GGATC 1 cut(s) 324
AoxI GGCC 3 cut(s) 1138, 1164, 1584
ApeKI GCWGC 6 cut(s) 239, 602, 911, 914, 1020, 1410
ApoI RAATTY 2 cut(s) 444, 653
ArsI GACNNNNNNTTYG 4 cut(s) 263, 295, 1126, 1158
AseI ATTAAT 1 cut(s) 402
Asp700I GAANNNNTTC 1 cut(s) 686
AspLEI GCGC 4 cut(s) 38, 502, 542, 637
AspS9I GGNCC 1 cut(s) 265
AsuC2I CCSGG 1 cut(s) 1407
AsuHPI GGTGA 3 cut(s) 80, 178, 985
AsuNHI GCTAGC 1 cut(s) 1265
AvaII GGWCC 1 cut(s) 265
BalI TGGCCA 1 cut(s) 1166
BanII GRGCYC 1 cut(s) 1050
BbvCI CCTCAGC 2 cut(s) 32, 1502
BbvI GCAGC 6 cut(s) 251, 589, 898, 901, 1032, 1397
BccI CCATC 4 cut(s) 149, 556, 664, 1181
BceAI ACGGC 3 cut(s) 756, 1125, 1289
BcgI CGANNNNNNTGC 2 cut(s) 514, 548
BclI TGATCA 1 cut(s) 963
BcnI CCSGG 1 cut(s) 1407
BcoDI GTCTC 2 cut(s) 1148, 1346
BfaI CTAG 2 cut(s) 699, 1266
BfmI CTRYAG 2 cut(s) 237, 1411
BfoI RGCGCY 2 cut(s) 39, 543
BisI GCNGC 8 cut(s) 39, 240, 603, 912, 915, 1021, 1411, 1623
BlsI GCNGC 8 cut(s) 40, 241, 604, 913, 916, 1022, 1412, 1624
Bme1390I CCNGG 1 cut(s) 1407
Bme18I GGWCC 1 cut(s) 265
BmgT120I GGNCC 1 cut(s) 265
BmiI GGNNCC 2 cut(s) 267, 1049
BmrFI CCNGG 1 cut(s) 1407
BmrI ACTGGG 1 cut(s) 1398
BmsI GCATC 3 cut(s) 342, 622, 1111
BmtI GCTAGC 1 cut(s) 1269
BmuI ACTGGG 1 cut(s) 1398
BpmI CTGGAG 2 cut(s) 623, 1476
Bpu10I CCTNAGC 2 cut(s) 32, 1502
BpuMI CCSGG 1 cut(s) 1407
BsaHI GRCGYC 2 cut(s) 287, 1477
BsaI GGTCTC 1 cut(s) 1346
BsaJI CCNNGG 2 cut(s) 243, 1200
BsaXI ACNNNNNCTCC 4 cut(s) 90, 113, 120, 143
Bsc4I CCNNNNNNNGG 4 cut(s) 328, 329, 1206, 1486
Bse118I RCCGGY 1 cut(s) 434
Bse1I ACTGG 3 cut(s) 1141, 1167, 1393
Bse3DI GCAATG 2 cut(s) 532, 1251
BseDI CCNNGG 2 cut(s) 243, 1200
BseGI GGATG 7 cut(s) 93, 141, 357, 637, 672, 1045, 1173
BseLI CCNNNNNNNGG 4 cut(s) 328, 329, 1206, 1486
BseMI GCAATG 2 cut(s) 532, 1251
BseMII CTCAG 2 cut(s) 46, 1493
BseNI ACTGG 3 cut(s) 1141, 1167, 1393
BseRI GAGGAG 3 cut(s) 95, 1592, 1595
BseXI GCAGC 6 cut(s) 251, 589, 898, 901, 1032, 1397
Bsh1236I CGCG 2 cut(s) 325, 500
BshFI GGCC 3 cut(s) 1140, 1166, 1586
BsiSI CCGG 5 cut(s) 263, 300, 435, 1407, 1480
BsiWI CGTACG 1 cut(s) 1155
BslFI GGGAC 2 cut(s) 925, 1225
BslI CCNNNNNNNGG 4 cut(s) 328, 329, 1206, 1486
BsmAI GTCTC 2 cut(s) 1148, 1346
BsmBI CGTCTC 1 cut(s) 1148
BsmFI GGGAC 2 cut(s) 925, 1225
BsnI GGCC 3 cut(s) 1140, 1166, 1586
Bso31I GGTCTC 1 cut(s) 1346
Bsp1286I GDGCHC 1 cut(s) 1050
Bsp143I GATC 5 cut(s) 316, 781, 963, 1363, 1370
BspANI GGCC 3 cut(s) 1140, 1166, 1586
BspCNI CTCAG 2 cut(s) 45, 1494
BspFNI CGCG 2 cut(s) 325, 500
BspHI TCATGA 1 cut(s) 1360
BspLI GGNNCC 2 cut(s) 267, 1049
BspMAI CTGCAG 2 cut(s) 241, 1415
BspOI GCTAGC 1 cut(s) 1269
BspPI GGATC 1 cut(s) 324
BspTNI GGTCTC 1 cut(s) 1346
BsrBI CCGCTC 1 cut(s) 1358
BsrDI GCAATG 2 cut(s) 532, 1251
BsrFI RCCGGY 1 cut(s) 434
BsrI ACTGG 3 cut(s) 1141, 1167, 1393
BssAI RCCGGY 1 cut(s) 434
BssECI CCNNGG 2 cut(s) 243, 1200
BssMI GATC 5 cut(s) 316, 781, 963, 1363, 1370
BssNI GRCGYC 2 cut(s) 287, 1477
BssT1I CCWWGG 2 cut(s) 243, 1200
Bst4CI ACNGT 3 cut(s) 78, 116, 397
Bst6I CTCTTC 1 cut(s) 49
BstACI GRCGYC 2 cut(s) 287, 1477
BstC8I GCNNGC 6 cut(s) 323, 420, 721, 1014, 1018, 1267
BstDEI CTNAG 2 cut(s) 32, 1502
BstF5I GGATG 7 cut(s) 93, 141, 357, 637, 672, 1045, 1173
BstFNI CGCG 2 cut(s) 325, 500
BstH2I RGCGCY 2 cut(s) 39, 543
BstHHI GCGC 4 cut(s) 38, 502, 542, 637
BstKTI GATC 5 cut(s) 319, 784, 966, 1366, 1373
BstMAI GTCTC 2 cut(s) 1148, 1346
BstMBI GATC 5 cut(s) 316, 781, 963, 1363, 1370
BstMWI GCNNNNNNNGC 5 cut(s) 309, 318, 608, 758, 1262
BstNSI RCATGY 3 cut(s) 820, 1016, 1126
BstSCI CCNGG 1 cut(s) 1405
BstSFI CTRYAG 2 cut(s) 237, 1411
BstUI CGCG 2 cut(s) 325, 500
BstV1I GCAGC 6 cut(s) 251, 589, 898, 901, 1032, 1397
BsuRI GGCC 3 cut(s) 1140, 1166, 1586
BtsCI GGATG 7 cut(s) 93, 141, 357, 637, 672, 1045, 1173
BtsI GCAGTG 1 cut(s) 768
BtsIMutI CAGTG 1 cut(s) 768
Cac8I GCNNGC 6 cut(s) 323, 420, 721, 1014, 1018, 1267
CciI TCATGA 1 cut(s) 1360
CfoI GCGC 4 cut(s) 38, 502, 542, 637
Cfr10I RCCGGY 1 cut(s) 434
Cfr13I GGNCC 1 cut(s) 265
CseI GACGC 2 cut(s) 665, 1485
Csp6I GTAC 4 cut(s) 514, 1156, 1386, 1635
CviQI GTAC 4 cut(s) 514, 1156, 1386, 1635
DdeI CTNAG 2 cut(s) 32, 1502
DpnI GATC 5 cut(s) 318, 783, 965, 1365, 1372
DpnII GATC 5 cut(s) 316, 781, 963, 1363, 1370
DrdI GACNNNNNNGTC 1 cut(s) 272
DseDI GACNNNNNNGTC 1 cut(s) 272
EaeI YGGCCR 2 cut(s) 1138, 1164
Eam1104I CTCTTC 1 cut(s) 49
EarI CTCTTC 1 cut(s) 49
EciI GGCGGA 1 cut(s) 240
Eco130I CCWWGG 2 cut(s) 243, 1200
Eco24I GRGCYC 1 cut(s) 1050
Eco31I GGTCTC 1 cut(s) 1346
Eco47I GGWCC 1 cut(s) 265
Eco57I CTGAAG 1 cut(s) 1590
EcoT14I CCWWGG 2 cut(s) 243, 1200
EcoT38I GRGCYC 1 cut(s) 1050
ErhI CCWWGG 2 cut(s) 243, 1200
Esp3I CGTCTC 1 cut(s) 1148
FaqI GGGAC 2 cut(s) 925, 1225
FauI CCCGC 3 cut(s) 71, 330, 540
FauNDI CATATG 1 cut(s) 1309
FbaI TGATCA 1 cut(s) 963
FblI GTMKAC 1 cut(s) 775
Fnu4HI GCNGC 8 cut(s) 39, 240, 603, 912, 915, 1021, 1411, 1623
FokI GGATG 7 cut(s) 80, 128, 364, 644, 679, 1052, 1160
FriOI GRGCYC 1 cut(s) 1050
Fsp4HI GCNGC 8 cut(s) 39, 240, 603, 912, 915, 1021, 1411, 1623
FspBI CTAG 2 cut(s) 699, 1266
GlaI GCGC 4 cut(s) 37, 501, 541, 636
GluI GCNGC 8 cut(s) 39, 240, 603, 912, 915, 1021, 1411, 1623
GsuI CTGGAG 2 cut(s) 623, 1476
HaeII RGCGCY 2 cut(s) 39, 543
HaeIII GGCC 3 cut(s) 1140, 1166, 1586
HapII CCGG 5 cut(s) 263, 300, 435, 1407, 1480
HgaI GACGC 2 cut(s) 665, 1485
HhaI GCGC 4 cut(s) 38, 502, 542, 637
Hin1I GRCGYC 2 cut(s) 287, 1477
Hin6I GCGC 4 cut(s) 36, 500, 540, 635
HinP1I GCGC 4 cut(s) 36, 500, 540, 635
HincII GTYRAC 4 cut(s) 776, 814, 1120, 1249
HindII GTYRAC 4 cut(s) 776, 814, 1120, 1249
HpaII CCGG 5 cut(s) 263, 300, 435, 1407, 1480
HphI GGTGA 3 cut(s) 80, 178, 985
Hpy166II GTNNAC 7 cut(s) 285, 384, 776, 814, 1120, 1249, 1475
Hpy188I TCNGA 4 cut(s) 681, 786, 850, 1375
Hpy188III TCNNGA 2 cut(s) 154, 1361
Hpy8I GTNNAC 7 cut(s) 285, 384, 776, 814, 1120, 1249, 1475
Hpy99I CGWCG 6 cut(s) 82, 155, 257, 278, 292, 777
HpyAV CCTTC 3 cut(s) 953, 1037, 1236
HpyCH4III ACNGT 3 cut(s) 78, 116, 397
HpyCH4IV ACGT 5 cut(s) 213, 273, 287, 306, 1316
HpyF10VI GCNNNNNNNGC 5 cut(s) 309, 318, 608, 758, 1262
HpyF3I CTNAG 2 cut(s) 32, 1502
HpySE526I ACGT 5 cut(s) 213, 273, 287, 306, 1316
Hsp92I GRCGYC 2 cut(s) 287, 1477
HspAI GCGC 4 cut(s) 36, 500, 540, 635
Ksp22I TGATCA 1 cut(s) 963
Kzo9I GATC 5 cut(s) 316, 781, 963, 1363, 1370
LmnI GCTCC 4 cut(s) 642, 673, 758, 1053
Lsp1109I GCAGC 6 cut(s) 251, 589, 898, 901, 1032, 1397
LweI GCATC 3 cut(s) 342, 622, 1111
MaeI CTAG 2 cut(s) 699, 1266
MaeII ACGT 5 cut(s) 213, 273, 287, 306, 1316
MaeIII GTNAC 5 cut(s) 116, 580, 991, 1312, 1492
MalI GATC 5 cut(s) 318, 783, 965, 1365, 1372
MbiI CCGCTC 1 cut(s) 1358
MboI GATC 5 cut(s) 316, 781, 963, 1363, 1370
MboII GAAGA 5 cut(s) 36, 968, 984, 1358, 1596
MhlI GDGCHC 1 cut(s) 1050
MlsI TGGCCA 1 cut(s) 1166
MluCI AATT 5 cut(s) 444, 653, 1438, 1596, 1626
MluNI TGGCCA 1 cut(s) 1166
MlyI GAGTC 4 cut(s) 116, 173, 227, 1427
MmeI TCCRAC 4 cut(s) 121, 1075, 1311, 1491
Mox20I TGGCCA 1 cut(s) 1166
MroXI GAANNNNTTC 1 cut(s) 686
MscI TGGCCA 1 cut(s) 1166
MseI TTAA 3 cut(s) 402, 657, 1428
MslI CAYNNNNRTG 2 cut(s) 453, 899
Msp20I TGGCCA 1 cut(s) 1166
MspI CCGG 5 cut(s) 263, 300, 435, 1407, 1480
MspR9I CCNGG 1 cut(s) 1407
MvnI CGCG 2 cut(s) 325, 500
MwoI GCNNNNNNNGC 5 cut(s) 309, 318, 608, 758, 1262
NciI CCSGG 1 cut(s) 1407
NdeI CATATG 1 cut(s) 1309
NdeII GATC 5 cut(s) 316, 781, 963, 1363, 1370
NheI GCTAGC 1 cut(s) 1265
NlaIV GGNNCC 2 cut(s) 267, 1049
NmeAIII GCCGAG 1 cut(s) 523
NmuCI GTSAC 2 cut(s) 991, 1312
NspI RCATGY 3 cut(s) 820, 1016, 1126
PaeI GCATGC 1 cut(s) 1016
PagI TCATGA 1 cut(s) 1360
PciI ACATGT 1 cut(s) 816
PcsI WCGNNNNNNNCGW 3 cut(s) 228, 624, 1138
PdmI GAANNNNTTC 1 cut(s) 686
PfeI GAWTC 6 cut(s) 228, 682, 766, 867, 1061, 1283
Pfl23II CGTACG 1 cut(s) 1155
PkrI GCNGC 8 cut(s) 40, 241, 604, 913, 916, 1022, 1412, 1624
PleI GAGTC 4 cut(s) 116, 173, 227, 1427
PpsI GAGTC 4 cut(s) 116, 173, 227, 1427
PscI ACATGT 1 cut(s) 816
PshBI ATTAAT 1 cut(s) 402
PspLI CGTACG 1 cut(s) 1155
PspN4I GGNNCC 2 cut(s) 267, 1049
PspPI GGNCC 1 cut(s) 265
PstI CTGCAG 2 cut(s) 241, 1415
RsaI GTAC 4 cut(s) 515, 1157, 1387, 1636
RsaNI GTAC 4 cut(s) 514, 1156, 1386, 1635
RseI CAYNNNNRTG 2 cut(s) 453, 899
SalI GTCGAC 1 cut(s) 774
SaqAI TTAA 3 cut(s) 402, 657, 1428
SatI GCNGC 8 cut(s) 39, 240, 603, 912, 915, 1021, 1411, 1623
Sau3AI GATC 5 cut(s) 316, 781, 963, 1363, 1370
Sau96I GGNCC 1 cut(s) 265
SchI GAGTC 4 cut(s) 116, 173, 227, 1427
ScrFI CCNGG 1 cut(s) 1407
SduI GDGCHC 1 cut(s) 1050
SfaNI GCATC 3 cut(s) 342, 622, 1111
SfcI CTRYAG 2 cut(s) 237, 1411
SinI GGWCC 1 cut(s) 265
SmiMI CAYNNNNRTG 2 cut(s) 453, 899
SphI GCATGC 1 cut(s) 1016
Sse9I AATT 5 cut(s) 444, 653, 1438, 1596, 1626
SspI AATATT 1 cut(s) 465
SspMI CTAG 2 cut(s) 699, 1266
StyD4I CCNGG 1 cut(s) 1405
StyI CCWWGG 2 cut(s) 243, 1200
TaaI ACNGT 3 cut(s) 78, 116, 397
TaiI ACGT 5 cut(s) 216, 276, 290, 309, 1319
TaqI TCGA 6 cut(s) 231, 252, 775, 899, 1132, 1369
TasI AATT 5 cut(s) 444, 653, 1438, 1596, 1626
TauI GCSGC 2 cut(s) 41, 1625
TfiI GAWTC 6 cut(s) 228, 682, 766, 867, 1061, 1283
Tru1I TTAA 3 cut(s) 402, 657, 1428
Tru9I TTAA 3 cut(s) 402, 657, 1428
TscAI CASTG 1 cut(s) 768
TseFI GTSAC 2 cut(s) 991, 1312
TseI GCWGC 6 cut(s) 239, 602, 911, 914, 1020, 1410
Tsp45I GTSAC 2 cut(s) 991, 1312
TspDTI ATGAA 7 cut(s) 17, 437, 679, 1056, 1074, 1394, 1538
TspGWI ACGGA 4 cut(s) 139, 329, 633, 1622
TspRI CASTG 1 cut(s) 768
VpaK11BI GGWCC 1 cut(s) 265
VspI ATTAAT 1 cut(s) 402
XapI RAATTY 2 cut(s) 444, 653
XceI RCATGY 3 cut(s) 820, 1016, 1126
XmiI GTMKAC 1 cut(s) 775
XmnI GAANNNNTTC 1 cut(s) 686
XspI CTAG 2 cut(s) 699, 1266
ZraI GACGTC 1 cut(s) 288
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.