Rroxscaffold_5G00340810

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0016816
Physical Location & Seq
Forward (+)
9313353 .. 9315242
1890 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00340810.1

Sequence Viewer

Length: 1548 bp
ATGTGCGTAATGAACCTCTTCGCTGCAGGCAAAATATTTACCCTCATCATCTCACGCAATTACACTTGTGCCACTGCGCTCCACCAGCCTCCGAACCTCCACCACTTCCTTCAGCTCTCAATCACACAACGCTCTCTCCCACTCGCTCAACAATCCCACGCGCGAGTCCTCACTCATGGCCTCCACCAAAACCCTTTCATCGCCACCAAGCTCATCTCCGCTTACGCTCTGTTCAACCACCCAACCAAGTCCAAACTCGTCTTCGACTCAATTGAACCCAAGAATGTGTATCTTTGGAACTCGTTGATTAATGGGTGCGTCAAAACTTGCGTTTACAACGAAGCATTCAAGTTGTTTGTCGAAATGTTGTGTTGTTGCGACGCATTGCCGGATGAGTATACGTTTTCGACAATGGCGAAAGTTTCCGGCGAGGTTGGGGACTTGGTCGCCGGGAAATGGGTTCATGGGAAGAGTGTGAGAGTTGGGTTTGTTACGGATACGGTTGTTGCGAATTCGCTGATGTCTATGTATTGCAAGTGTGGGGAGTTTGGGGAATGTAGGAAGGTGTTTGATGAAATGCCTGAGAGAAATGTGGGGTCTTGGAATGTGTTGATAGCAGGGTGTGGGTTTGATAATGGGATGTTGGGAAGTGTTAAGTGTATGATGAGGAGTGGGTTGAAGCCCGACGGGTTTACTGTTTCGAGTCTGTTGGGTTTGTGTGGAGGTGGGGATGTTGGGGAATTGGGGTATGGGAGGGAGCTTCATTGTTATGTTGTGAAGTATGGATTGGATTTGAATTTGGGTTCGGATGTTCATCTTGGGTGTTGTTTGGTTGATATGTATTGTAGGAGTGGTAGAGTTGATTTGGGGAGACTGGTGTTTGAGCGCATGAAGTGTAGAAATGTATATGCTTGGACGGTGATGGTCATTGGTTATGTGCAGAATGGAGCGTCCGATGAAGGATTGATTCTTTTCCGGAAGATGCAGGTGGAAGATGGGGTAGAACCCAATAGAGTGTCGCTTGTAAGTGTTCTCCCAGCTTTCTATAGCTCTGCAACAACTGATTATGGTATTAAACCAACAGTGGAGATATGTGCTTGTGTGGTGGATCTGTTAAGTCGATCAGGAGAGCTTGATCGAGCATTAAATTTCATCAAAATGATGCCTGTAGAACCTGGTCCAAGTGTTTGGGGGGCTTTAGTCACTGCTTCTGTATTGCAGGGGAACCATTACATGCAAAATCTAGCTTATAAGTTCCTCATTCAATTAGAACCCGAAAACCCTTCAAATTATATCTCAGCATCAAATTTCCATGCTTCTTCTAGAAGATGGGACGTTGTAGCTGAAACAAGAACAATGATGAAGGACAGAGGTTTGAAGAAGACACCTGGGTGTAGTTGGATTAGCATTACTGGTAAGACTCATTCTTTCTATGTTGCTGATAAAGTACATCCTTGCTGTGATTCGATCTATGAGATGCTTGACTACCTCATTTTAGTAATGAAGGGAGCTCCTGATTCTCATGACTTGGTAGAATATTCAGCCTAG
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 PPR_2

Protein Analysis

515

Amino Acids

57.01

Weight (kDa)

6.91

Isoelectric Point (pI)

30.73

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 94 - 139 5.5e-09 PPR repeat family
PPR_2 PF13041 166 - 198 1.4e-06 PPR repeat family
PPR PF01535 169 - 198 6.6e-07 PPR repeat
E_motif PF20431 415 - 468 7.1e-15 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: OG0016816)

Species Orthologous Gene IDs
fragaria_vesca FvH4_4g05100
malus_domestica MD13G1224800.v1.1
prunus_persica Prupe.1G051400_v2.0.a1
pyrus_communis pycom13g19840
rosa_chinensis RchiOBHm_Chr4g0396021
rosa_laevigata RLG00000009580
rosa_multiflora Rmu_sc0030438.1_g000001 Rmu_sc0031838.1_g000001
rosa_roxburghii Rroxscaffold_5G00340810
rosa_rugosa Rorug03G0352900
rosa_samantha Rh4BG063500 Rh4CG070100 Rh4DG060000
rosa_wichuraiana Rw4G005240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1251
AarI CACCTGC 1 cut(s) 976
Acc36I ACCTGC 1 cut(s) 976
AccI GTMKAC 1 cut(s) 398
AccII CGCG 2 cut(s) 161, 163
AccIII TCCGGA 1 cut(s) 975
AciI CCGC 1 cut(s) 219
AclWI GGATC 1 cut(s) 1116
AcsI RAATTY 4 cut(s) 511, 796, 1147, 1306
AcuI CTGAAG 1 cut(s) 95
AfaI GTAC 1 cut(s) 1449
AfiI CCNNNNNNNGG 1 cut(s) 456
AgsI TTSAA 8 cut(s) 235, 275, 349, 679, 796, 1265, 1287, 1378
AjnI CCWGG 2 cut(s) 1174, 1387
AjuI GAANNNNNNNTTGG 4 cut(s) 245, 277, 770, 802
AleI CACNNNNGTG 1 cut(s) 1390
AluBI AGCT 9 cut(s) 115, 211, 760, 1040, 1050, 1132, 1247, 1343, 1511
AluI AGCT 9 cut(s) 115, 211, 760, 1040, 1050, 1132, 1247, 1343, 1511
Alw21I GWGCWC 1 cut(s) 1513
Alw26I GTCTC 1 cut(s) 865
AlwI GGATC 1 cut(s) 1116
Aor13HI TCCGGA 1 cut(s) 975
AoxI GGCC 1 cut(s) 178
ApeKI GCWGC 1 cut(s) 23
ApoI RAATTY 4 cut(s) 511, 796, 1147, 1306
AseI ATTAAT 1 cut(s) 309
Asp700I GAANNNNTTC 1 cut(s) 17
AspLEI GCGC 3 cut(s) 79, 163, 888
AspS9I GGNCC 1 cut(s) 1178
AsuC2I CCSGG 1 cut(s) 451
AsuHPI GGTGA 1 cut(s) 931
AvaII GGWCC 1 cut(s) 1178
BaeI ACNNNNGTAYC 2 cut(s) 489, 522
BanII GRGCYC 1 cut(s) 1513
BbsI GAAGAC 2 cut(s) 253, 1388
Bbv12I GWGCWC 1 cut(s) 1513
BbvI GCAGC 1 cut(s) 10
BccI CCATC 3 cut(s) 916, 989, 1323
BciT130I CCWGG 2 cut(s) 1176, 1389
BciVI GTATCC 1 cut(s) 490
BcnI CCSGG 1 cut(s) 451
BcoDI GTCTC 1 cut(s) 865
BfaI CTAG 3 cut(s) 1244, 1323, 1546
BfmI CTRYAG 3 cut(s) 24, 1045, 1167
BfuAI ACCTGC 1 cut(s) 976
BfuI GTATCC 1 cut(s) 490
BisI GCNGC 1 cut(s) 24
BlsI GCNGC 1 cut(s) 25
Bme1390I CCNGG 3 cut(s) 451, 1176, 1389
Bme18I GGWCC 1 cut(s) 1178
BmgT120I GGNCC 1 cut(s) 1178
BmiI GGNNCC 1 cut(s) 1226
BmrFI CCNGG 3 cut(s) 451, 1176, 1389
BmsI GCATC 4 cut(s) 972, 1152, 1310, 1467
BpiI GAAGAC 2 cut(s) 253, 1388
BpuMI CCSGG 1 cut(s) 451
BsaBI GATNNNNATC 1 cut(s) 813
BsaJI CCNNGG 1 cut(s) 1388
BsaWI WCCGGW 1 cut(s) 975
BsaXI ACNNNNNCTCC 2 cut(s) 120, 150
Bsc4I CCNNNNNNNGG 1 cut(s) 456
Bse1I ACTGG 2 cut(s) 879, 1417
Bse3DI GCAATG 1 cut(s) 383
Bse8I GATNNNNATC 1 cut(s) 813
BseAI TCCGGA 1 cut(s) 975
BseBI CCWGG 2 cut(s) 1176, 1389
BseDI CCNNGG 1 cut(s) 1388
BseGI GGATG 5 cut(s) 397, 645, 736, 814, 1450
BseJI GATNNNNATC 1 cut(s) 813
BseLI CCNNNNNNNGG 1 cut(s) 456
BseMI GCAATG 1 cut(s) 383
BseMII CTCAG 2 cut(s) 573, 1311
BseNI ACTGG 2 cut(s) 879, 1417
BseRI GAGGAG 1 cut(s) 682
BseXI GCAGC 1 cut(s) 10
BseYI CCCAGC 1 cut(s) 1036
BsgI GTGCAG 1 cut(s) 959
Bsh1236I CGCG 2 cut(s) 161, 163
BshFI GGCC 1 cut(s) 180
BsiHKAI GWGCWC 1 cut(s) 1513
BsiSI CCGG 4 cut(s) 389, 426, 450, 976
BslFI GGGAC 2 cut(s) 452, 1346
BslI CCNNNNNNNGG 1 cut(s) 456
BsmAI GTCTC 1 cut(s) 865
BsmFI GGGAC 2 cut(s) 452, 1346
BsmI GAATGC 1 cut(s) 344
BsnI GGCC 1 cut(s) 180
Bsp1286I GDGCHC 1 cut(s) 1513
Bsp13I TCCGGA 1 cut(s) 975
Bsp143I GATC 4 cut(s) 1108, 1121, 1135, 1467
BspACI CCGC 1 cut(s) 219
BspANI GGCC 1 cut(s) 180
BspCNI CTCAG 2 cut(s) 574, 1310
BspEI TCCGGA 1 cut(s) 975
BspFNI CGCG 2 cut(s) 161, 163
BspHI TCATGA 1 cut(s) 1522
BspLI GGNNCC 1 cut(s) 1226
BspMAI CTGCAG 1 cut(s) 28
BspMI ACCTGC 1 cut(s) 976
BspPI GGATC 1 cut(s) 1116
BsrDI GCAATG 1 cut(s) 383
BsrI ACTGG 2 cut(s) 879, 1417
BssECI CCNNGG 1 cut(s) 1388
BssMI GATC 4 cut(s) 1108, 1121, 1135, 1467
BssNAI GTATAC 1 cut(s) 399
Bst1107I GTATAC 1 cut(s) 399
Bst2UI CCWGG 2 cut(s) 1176, 1389
Bst4CI ACNGT 4 cut(s) 502, 697, 919, 1084
Bst6I CTCTTC 2 cut(s) 23, 464
BstC8I GCNNGC 1 cut(s) 28
BstDEI CTNAG 2 cut(s) 582, 1297
BstF5I GGATG 5 cut(s) 397, 645, 736, 814, 1450
BstFNI CGCG 2 cut(s) 161, 163
BstHHI GCGC 3 cut(s) 79, 163, 888
BstKTI GATC 4 cut(s) 1111, 1124, 1138, 1470
BstMAI GTCTC 1 cut(s) 865
BstMBI GATC 4 cut(s) 1108, 1121, 1135, 1467
BstMWI GCNNNNNNNGC 1 cut(s) 85
BstNI CCWGG 2 cut(s) 1176, 1389
BstNSI RCATGY 1 cut(s) 1237
BstSCI CCNGG 3 cut(s) 449, 1174, 1387
BstSFI CTRYAG 3 cut(s) 24, 1045, 1167
BstUI CGCG 2 cut(s) 161, 163
BstV1I GCAGC 1 cut(s) 10
BstV2I GAAGAC 2 cut(s) 253, 1388
BstX2I RGATCY 1 cut(s) 1108
BstXI CCANNNNNNTGG 1 cut(s) 1188
BstYI RGATCY 1 cut(s) 1108
BstZ17I GTATAC 1 cut(s) 399
BsuI GTATCC 1 cut(s) 490
BsuRI GGCC 1 cut(s) 180
BtgZI GCGATG 1 cut(s) 184
BtsCI GGATG 5 cut(s) 397, 645, 736, 814, 1450
BtsI GCAGTG 2 cut(s) 72, 1203
BtsIMutI CAGTG 3 cut(s) 72, 1089, 1203
BveI ACCTGC 1 cut(s) 976
Cac8I GCNNGC 1 cut(s) 28
CciI TCATGA 1 cut(s) 1522
CfoI GCGC 3 cut(s) 79, 163, 888
Cfr13I GGNCC 1 cut(s) 1178
CseI GACGC 3 cut(s) 307, 389, 939
CsiI ACCWGGT 1 cut(s) 1174
Csp6I GTAC 1 cut(s) 1448
CviAII CATG 6 cut(s) 176, 464, 889, 1234, 1313, 1523
CviQI GTAC 1 cut(s) 1448
DdeI CTNAG 2 cut(s) 582, 1297
DpnI GATC 4 cut(s) 1110, 1123, 1137, 1469
DpnII GATC 4 cut(s) 1108, 1121, 1135, 1467
Eam1104I CTCTTC 2 cut(s) 23, 464
EarI CTCTTC 2 cut(s) 23, 464
Ecl136II GAGCTC 1 cut(s) 1511
Eco24I GRGCYC 1 cut(s) 1513
Eco47I GGWCC 1 cut(s) 1178
Eco53kI GAGCTC 1 cut(s) 1511
Eco57I CTGAAG 1 cut(s) 95
EcoICRI GAGCTC 1 cut(s) 1511
EcoRI GAATTC 1 cut(s) 511
EcoRII CCWGG 2 cut(s) 1174, 1387
EcoT38I GRGCYC 1 cut(s) 1513
FaeI CATG 6 cut(s) 179, 467, 892, 1237, 1316, 1526
FaqI GGGAC 2 cut(s) 452, 1346
FatI CATG 6 cut(s) 175, 463, 888, 1233, 1312, 1522
FblI GTMKAC 1 cut(s) 398
Fnu4HI GCNGC 1 cut(s) 24
FokI GGATG 5 cut(s) 404, 652, 743, 821, 1437
FriOI GRGCYC 1 cut(s) 1513
Fsp4HI GCNGC 1 cut(s) 24
FspBI CTAG 3 cut(s) 1244, 1323, 1546
GlaI GCGC 3 cut(s) 78, 162, 887
GluI GCNGC 1 cut(s) 24
GsaI CCCAGC 1 cut(s) 1040
HaeIII GGCC 1 cut(s) 180
HapII CCGG 4 cut(s) 389, 426, 450, 976
HgaI GACGC 3 cut(s) 307, 389, 939
HhaI GCGC 3 cut(s) 79, 163, 888
Hin1II CATG 6 cut(s) 179, 467, 892, 1237, 1316, 1526
Hin6I GCGC 3 cut(s) 77, 161, 886
HinP1I GCGC 3 cut(s) 77, 161, 886
HinfI GANTC 7 cut(s) 165, 266, 703, 967, 1420, 1463, 1517
HpaII CCGG 4 cut(s) 389, 426, 450, 976
HphI GGTGA 1 cut(s) 931
Hpy166II GTNNAC 3 cut(s) 334, 399, 693
Hpy188I TCNGA 3 cut(s) 93, 808, 955
Hpy188III TCNNGA 5 cut(s) 976, 1125, 1323, 1514, 1523
Hpy8I GTNNAC 3 cut(s) 334, 399, 693
Hpy99I CGWCG 2 cut(s) 383, 689
HpyAV CCTTC 6 cut(s) 119, 556, 953, 1293, 1357, 1498
HpyCH4III ACNGT 4 cut(s) 502, 697, 919, 1084
HpyCH4IV ACGT 2 cut(s) 401, 1335
HpyCH4V TGCA 7 cut(s) 26, 534, 940, 985, 1055, 1219, 1237
HpyF10VI GCNNNNNNNGC 1 cut(s) 85
HpyF3I CTNAG 2 cut(s) 582, 1297
HpySE526I ACGT 2 cut(s) 401, 1335
Hsp92II CATG 6 cut(s) 179, 467, 892, 1237, 1316, 1526
HspAI GCGC 3 cut(s) 77, 161, 886
Kpn2I TCCGGA 1 cut(s) 975
Kzo9I GATC 4 cut(s) 1108, 1121, 1135, 1467
LmnI GCTCC 5 cut(s) 84, 757, 947, 1508, 1516
Lsp1109I GCAGC 1 cut(s) 10
LweI GCATC 4 cut(s) 972, 1152, 1310, 1467
MabI ACCWGGT 1 cut(s) 1174
MaeI CTAG 3 cut(s) 1244, 1323, 1546
MaeII ACGT 2 cut(s) 401, 1335
MaeIII GTNAC 2 cut(s) 490, 1201
MalI GATC 4 cut(s) 1110, 1123, 1137, 1469
MboI GATC 4 cut(s) 1108, 1121, 1135, 1467
MboII GAAGA 9 cut(s) 10, 253, 481, 991, 1004, 1311, 1338, 1390, 1393
MfeI CAATTG 1 cut(s) 270
MflI RGATCY 1 cut(s) 1108
MhlI GDGCHC 1 cut(s) 1513
MluCI AATT 9 cut(s) 58, 270, 511, 740, 796, 1147, 1265, 1288, 1306
MlyI GAGTC 4 cut(s) 174, 260, 712, 1414
MmeI TCCRAC 1 cut(s) 1379
MroI TCCGGA 1 cut(s) 975
MroXI GAANNNNTTC 1 cut(s) 17
MseI TTAA 5 cut(s) 309, 654, 1074, 1115, 1145
MslI CAYNNNNRTG 3 cut(s) 768, 1157, 1390
MspI CCGG 4 cut(s) 389, 426, 450, 976
MspR9I CCNGG 3 cut(s) 451, 1176, 1389
MunI CAATTG 1 cut(s) 270
Mva1269I GAATGC 1 cut(s) 344
MvaI CCWGG 2 cut(s) 1176, 1389
MvnI CGCG 2 cut(s) 161, 163
MwoI GCNNNNNNNGC 1 cut(s) 85
NciI CCSGG 1 cut(s) 451
NdeII GATC 4 cut(s) 1108, 1121, 1135, 1467
NlaIII CATG 6 cut(s) 179, 467, 892, 1237, 1316, 1526
NlaIV GGNNCC 1 cut(s) 1226
NmuCI GTSAC 1 cut(s) 1201
NspI RCATGY 1 cut(s) 1237
OliI CACNNNNGTG 1 cut(s) 1390
PagI TCATGA 1 cut(s) 1522
PaqCI CACCTGC 1 cut(s) 976
PcsI WCGNNNNNNNCGW 2 cut(s) 413, 506
PctI GAATGC 1 cut(s) 344
PdmI GAANNNNTTC 1 cut(s) 17
PfeI GAWTC 3 cut(s) 967, 1463, 1517
PflFI GACNNNGTC 1 cut(s) 443
PkrI GCNGC 1 cut(s) 25
PleI GAGTC 4 cut(s) 173, 260, 711, 1414
PpsI GAGTC 4 cut(s) 173, 260, 711, 1414
PshBI ATTAAT 1 cut(s) 309
PsiI TTATAA 1 cut(s) 1251
Psp124BI GAGCTC 1 cut(s) 1513
Psp6I CCWGG 2 cut(s) 1174, 1387
PspFI CCCAGC 1 cut(s) 1036
PspGI CCWGG 2 cut(s) 1174, 1387
PspN4I GGNNCC 1 cut(s) 1226
PspPI GGNCC 1 cut(s) 1178
PstI CTGCAG 1 cut(s) 28
PsuI RGATCY 1 cut(s) 1108
PsyI GACNNNGTC 1 cut(s) 443
RsaI GTAC 1 cut(s) 1449
RsaNI GTAC 1 cut(s) 1448
RseI CAYNNNNRTG 3 cut(s) 768, 1157, 1390
SacI GAGCTC 1 cut(s) 1513
SaqAI TTAA 5 cut(s) 309, 654, 1074, 1115, 1145
SatI GCNGC 1 cut(s) 24
Sau3AI GATC 4 cut(s) 1108, 1121, 1135, 1467
Sau96I GGNCC 1 cut(s) 1178
SchI GAGTC 4 cut(s) 174, 260, 712, 1414
ScrFI CCNGG 3 cut(s) 451, 1176, 1389
SduI GDGCHC 1 cut(s) 1513
SexAI ACCWGGT 1 cut(s) 1174
SfaNI GCATC 4 cut(s) 972, 1152, 1310, 1467
SfcI CTRYAG 3 cut(s) 24, 1045, 1167
SinI GGWCC 1 cut(s) 1178
SmiMI CAYNNNNRTG 3 cut(s) 768, 1157, 1390
Sse9I AATT 9 cut(s) 58, 270, 511, 740, 796, 1147, 1265, 1288, 1306
SsiI CCGC 1 cut(s) 219
SspI AATATT 2 cut(s) 36, 1538
SspMI CTAG 3 cut(s) 1244, 1323, 1546
SstI GAGCTC 1 cut(s) 1513
StyD4I CCNGG 3 cut(s) 449, 1174, 1387
TaaI ACNGT 4 cut(s) 502, 697, 919, 1084
TaiI ACGT 2 cut(s) 404, 1338
TaqI TCGA 7 cut(s) 264, 360, 407, 701, 1120, 1138, 1466
TasI AATT 9 cut(s) 58, 270, 511, 740, 796, 1147, 1265, 1288, 1306
TatI WGTACW 1 cut(s) 1447
TfiI GAWTC 3 cut(s) 967, 1463, 1517
Tru1I TTAA 5 cut(s) 309, 654, 1074, 1115, 1145
Tru9I TTAA 5 cut(s) 309, 654, 1074, 1115, 1145
TscAI CASTG 3 cut(s) 79, 1089, 1210
TseFI GTSAC 1 cut(s) 1201
TseI GCWGC 1 cut(s) 23
Tsp45I GTSAC 1 cut(s) 1201
TspGWI ACGGA 1 cut(s) 509
TspRI CASTG 3 cut(s) 79, 1089, 1210
Tth111I GACNNNGTC 1 cut(s) 443
VpaK11BI GGWCC 1 cut(s) 1178
VspI ATTAAT 1 cut(s) 309
XapI RAATTY 4 cut(s) 511, 796, 1147, 1306
XbaI TCTAGA 1 cut(s) 1322
XceI RCATGY 1 cut(s) 1237
XmiI GTMKAC 1 cut(s) 398
XmnI GAANNNNTTC 1 cut(s) 17
XspI CTAG 3 cut(s) 1244, 1323, 1546
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.