Rroxscaffold_1G00056170

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0014691
Physical Location & Seq
Forward (+)
77947894 .. 77949467
1574 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00056170.1

Sequence Viewer

Length: 1479 bp
ATGAATGGGTTAGCTAGACAAGCAGAGCTTTTAGTTTCACGAACCGAAAGCTTTAATTTATTGACGTTTTTCATTAGGGGTAGAAGAGCATACATGAAACCCCATTACAGAAACTCCTATGATTACACAGACTTGCTTCAACATTGCAGAAACACCAAATCAATCAAGAAACTCCACGCCCAGATCATCATCGGAGGTCTACTCCAAAACCCATTTGTGGCTTCAAAGCTAGTAGGCAAGTACGTGGATTGTGGTGACTCAAGTATGGGAGATGCACGGAAGGTGTTCGATGAATTGACTGAGAGAGATGTGTTTGTATGGAACATGGTCATTCAGGGTTATGCAAATGTTGGGCCTTTTGCTGAAGCCCTTAAAATGTGTAATAGAATGAGGCTGAGTGGGTTATCCCCAAATCGGTACACTTACCCTTTTGTGCTTAAGGCTTGTGGAGCAATAAGAGATGGAAAGCAGGGTCAGGTTGTTCATGGGCGGATTGTGAAATCTGGGCTTGACTTGCAGTTGTTTGTGGGGAATGCTCTTGTGGCATTGTATTCTAAGTGTGAGGAAATTGAGGTATCGAGAAGAGTGTTCGATGAATTGCCTCTGAAAGATCTTGTTAGTTGGAATTCCATGATTTCGGGGTATGCCACGAATGGATACCCGAATGAGGCTGTTGAAATTTTTCGTGCAATGATACAAGGTCCTACTACATGCTTGCCTGACCATGCCACTCTGGTTTGTGTGCTTCCGGCTTGTGTTGAAGCATCTGCTATTGAAGTTGGGTTTTGGATTCATTCTTACATTGTGAAGACGAGTATAAAAGTTGATTCTGCTTTGGGCAGTGCTCTCATTTCAATGTATGCAAACTGTGGTCGTGTAAGAGTTTCCAGAGTTATCTTTGATCGAGTAAGTGATAAGAATGTGGTGCTGTGGAGCGCCATGATGAGGTGTTATGGAATGCATGGGCACACAGACAAGGTGCTCCAGATGTTTTCGCAGTTGGAGGAGTCCAGTTTACACCCAGATGCTAAAAACGAGAAGCATTATGCTTGCATTGTAGACCTTCTGGGAAGAGCTGGGTTAATTGACCGGGCAGTCAAGTTTATTGAAAGCATGCCCATACAGGCAGGGAAAGATGTATACGGTGCACTACTTGGAGCTTGTAGGATACATAATAACATAGAACTTGCCGAAGAAACTGCACAGAAATTGTTTGTTTTGGATCCTGGAAATGCTGGGAGGTATATTCTTCTGGCCAGCATGTATGAAGATGCAGGGCGATGGGAAGATGCAGCTAGAGTGAGGAGGCTAATCAGAGAGAAGAACATCAAGAAGCCAACTGGACGTAGTTCGATTGAGGTGGATTGCATCTATCACACATTTGGAGCTGATGATGAGTCTCACCCATATACAGACCAGATATTTGACACATTGGAGAGAATGGATAGGATAATGGAAGAAGCCATAGTAATGGTTTAG
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

492

Amino Acids

55.31

Weight (kDa)

7.89

Isoelectric Point (pI)

43.27

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 102 - 149 1.2e-10 PPR repeat family
PPR_2 PF13041 204 - 252 1.6e-06 PPR repeat family
PPR PF01535 206 - 232 1.2e-07 PPR repeat
E_motif PF20431 391 - 453 1.9e-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: OG0014691)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g13960
malus_domestica MD05G1239500.v1.1 MD10G1217700.v1.1
prunus_persica Prupe.4G126300_v2.0.a1
pyrus_communis pycom05g21580 pycom10g18360
rosa_chinensis RchiOBHm_Chr5g0023171
rosa_laevigata RLG00000032705
rosa_multiflora Rmu_sc0007300.1_g000014
rosa_roxburghii Rroxscaffold_1G00056170
rosa_rugosa Rorug05G0077700
rosa_samantha Rh5AG163900 Rh5BG163200 Rh5CG178200 Rh5DG164600
rosa_wichuraiana Rw0G018300 Rw5G014790

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 1094
AccI GTMKAC 3 cut(s) 199, 1059, 1140
AciI CCGC 1 cut(s) 490
AclWI GGATC 2 cut(s) 1217, 1230
AcoI YGGCCR 1 cut(s) 1254
AcsI RAATTY 2 cut(s) 625, 678
AcuI CTGAAG 1 cut(s) 384
AfaI GTAC 2 cut(s) 242, 419
AfiI CCNNNNNNNGG 4 cut(s) 217, 414, 667, 945
AflII CTTAAG 1 cut(s) 437
AgsI TTSAA 7 cut(s) 140, 225, 677, 761, 776, 855, 1109
AjnI CCWGG 1 cut(s) 1225
AluBI AGCT 8 cut(s) 14, 28, 51, 229, 1076, 1160, 1295, 1388
AluI AGCT 8 cut(s) 14, 28, 51, 229, 1076, 1160, 1295, 1388
Alw21I GWGCWC 3 cut(s) 847, 984, 1150
Alw26I GTCTC 1 cut(s) 1404
Alw44I GTGCAC 1 cut(s) 1146
AlwI GGATC 2 cut(s) 1217, 1230
AoxI GGCC 2 cut(s) 353, 1254
ApaLI GTGCAC 1 cut(s) 1146
ApeKI GCWGC 1 cut(s) 1292
ApoI RAATTY 2 cut(s) 625, 678
ArsI GACNNNNNNTTYG 2 cut(s) 1406, 1438
Asp700I GAANNNNTTC 2 cut(s) 284, 681
AspLEI GCGC 1 cut(s) 938
AspS9I GGNCC 2 cut(s) 353, 701
AsuC2I CCSGG 1 cut(s) 1091
AsuHPI GGTGA 2 cut(s) 266, 1394
AvaII GGWCC 1 cut(s) 701
BaeGI GKGCMC 2 cut(s) 969, 1150
BalI TGGCCA 1 cut(s) 1256
BamHI GGATCC 1 cut(s) 1222
BbsI GAAGAC 1 cut(s) 815
Bbv12I GWGCWC 3 cut(s) 847, 984, 1150
BbvI GCAGC 1 cut(s) 1304
BccI CCATC 2 cut(s) 455, 1275
BcgI CGANNNNNNTGC 2 cut(s) 1181, 1215
BciT130I CCWGG 1 cut(s) 1227
BciVI GTATCC 2 cut(s) 650, 1161
BcnI CCSGG 1 cut(s) 1091
BcoDI GTCTC 1 cut(s) 1404
BfaI CTAG 3 cut(s) 15, 230, 1296
BfoI RGCGCY 1 cut(s) 939
BfrI CTTAAG 1 cut(s) 437
BfuI GTATCC 2 cut(s) 650, 1161
BglII AGATCT 1 cut(s) 610
BisI GCNGC 1 cut(s) 1293
BlsI GCNGC 1 cut(s) 1294
Bme1390I CCNGG 2 cut(s) 1091, 1227
Bme18I GGWCC 1 cut(s) 701
BmgT120I GGNCC 2 cut(s) 353, 701
BmiI GGNNCC 1 cut(s) 1224
BmrFI CCNGG 2 cut(s) 1091, 1227
BmsI GCATC 6 cut(s) 262, 773, 1015, 1261, 1279, 1377
BpiI GAAGAC 1 cut(s) 815
BplI GAGNNNNNCTC 2 cut(s) 186, 218
BpmI CTGGAG 1 cut(s) 968
BpuEI CTTGAG 1 cut(s) 244
BpuMI CCSGG 1 cut(s) 1091
BsaAI YACGTR 1 cut(s) 244
BsaBI GATNNNNATC 1 cut(s) 188
BsaXI ACNNNNNCTCC 2 cut(s) 98, 128
Bsc4I CCNNNNNNNGG 4 cut(s) 217, 414, 667, 945
Bse1I ACTGG 2 cut(s) 1011, 1345
Bse3DI GCAATG 2 cut(s) 142, 696
Bse8I GATNNNNATC 1 cut(s) 188
BseBI CCWGG 1 cut(s) 1227
BseJI GATNNNNATC 1 cut(s) 188
BseLI CCNNNNNNNGG 4 cut(s) 217, 414, 667, 945
BseMI GCAATG 2 cut(s) 142, 696
BseMII CTCAG 2 cut(s) 291, 386
BseNI ACTGG 2 cut(s) 1011, 1345
BseRI GAGGAG 2 cut(s) 1019, 1318
BseSI GKGCMC 2 cut(s) 969, 1150
BseXI GCAGC 1 cut(s) 1304
BseYI CCCAGC 2 cut(s) 1076, 1235
BsgI GTGCAG 1 cut(s) 1185
BshFI GGCC 2 cut(s) 355, 1256
BsiHKAI GWGCWC 3 cut(s) 847, 984, 1150
BsiSI CCGG 2 cut(s) 749, 1090
BslI CCNNNNNNNGG 4 cut(s) 217, 414, 667, 945
BsmAI GTCTC 1 cut(s) 1404
BsmI GAATGC 2 cut(s) 538, 963
BsnI GGCC 2 cut(s) 355, 1256
Bsp1286I GDGCHC 4 cut(s) 847, 969, 984, 1150
Bsp143I GATC 4 cut(s) 183, 610, 901, 1222
BspACI CCGC 1 cut(s) 490
BspANI GGCC 2 cut(s) 355, 1256
BspCNI CTCAG 2 cut(s) 292, 387
BspLI GGNNCC 1 cut(s) 1224
BspPI GGATC 2 cut(s) 1217, 1230
BspQI GCTCTTC 2 cut(s) 79, 1066
BspTI CTTAAG 1 cut(s) 437
BsrDI GCAATG 2 cut(s) 142, 696
BsrI ACTGG 2 cut(s) 1011, 1345
BssMI GATC 4 cut(s) 183, 610, 901, 1222
BssNAI GTATAC 1 cut(s) 1141
Bst1107I GTATAC 1 cut(s) 1141
Bst2UI CCWGG 1 cut(s) 1227
Bst4CI ACNGT 2 cut(s) 869, 1145
Bst6I CTCTTC 3 cut(s) 79, 577, 1066
BstAFI CTTAAG 1 cut(s) 437
BstBAI YACGTR 1 cut(s) 244
BstC8I GCNNGC 4 cut(s) 716, 1051, 1115, 1258
BstDEI CTNAG 3 cut(s) 300, 395, 555
BstH2I RGCGCY 1 cut(s) 939
BstHHI GCGC 1 cut(s) 938
BstKTI GATC 4 cut(s) 186, 613, 904, 1225
BstMAI GTCTC 1 cut(s) 1404
BstMBI GATC 4 cut(s) 183, 610, 901, 1222
BstMWI GCNNNNNNNGC 4 cut(s) 20, 449, 514, 542
BstNI CCWGG 1 cut(s) 1227
BstNSI RCATGY 3 cut(s) 714, 1117, 1264
BstSCI CCNGG 2 cut(s) 1089, 1225
BstSLI GKGCMC 2 cut(s) 969, 1150
BstV1I GCAGC 1 cut(s) 1304
BstV2I GAAGAC 1 cut(s) 815
BstX2I RGATCY 2 cut(s) 610, 1222
BstXI CCANNNNNNTGG 1 cut(s) 1471
BstYI RGATCY 2 cut(s) 610, 1222
BstZ17I GTATAC 1 cut(s) 1141
BsuI GTATCC 2 cut(s) 650, 1161
BsuRI GGCC 2 cut(s) 355, 1256
BtgZI GCGATG 1 cut(s) 1294
BtsI GCAGTG 1 cut(s) 847
BtsIMutI CAGTG 1 cut(s) 847
Cac8I GCNNGC 4 cut(s) 716, 1051, 1115, 1258
CfoI GCGC 1 cut(s) 938
Cfr13I GGNCC 2 cut(s) 353, 701
Csp6I GTAC 2 cut(s) 241, 418
CviQI GTAC 2 cut(s) 241, 418
DdeI CTNAG 3 cut(s) 300, 395, 555
DpnI GATC 4 cut(s) 185, 612, 903, 1224
DpnII GATC 4 cut(s) 183, 610, 901, 1222
DrdI GACNNNNNNGTC 1 cut(s) 1094
DseDI GACNNNNNNGTC 1 cut(s) 1094
EaeI YGGCCR 1 cut(s) 1254
Eam1104I CTCTTC 3 cut(s) 79, 577, 1066
EarI CTCTTC 3 cut(s) 79, 577, 1066
EciI GGCGGA 1 cut(s) 505
Eco47I GGWCC 1 cut(s) 701
Eco57I CTGAAG 1 cut(s) 384
EcoO109I RGGNCCY 1 cut(s) 701
EcoRI GAATTC 1 cut(s) 625
EcoRII CCWGG 1 cut(s) 1225
EcoT22I ATGCAT 1 cut(s) 963
FalI AAGNNNNNCTT 2 cut(s) 12, 44
FblI GTMKAC 3 cut(s) 199, 1059, 1140
Fnu4HI GCNGC 1 cut(s) 1293
Fsp4HI GCNGC 1 cut(s) 1293
FspBI CTAG 3 cut(s) 15, 230, 1296
GlaI GCGC 1 cut(s) 937
GluI GCNGC 1 cut(s) 1293
GsaI CCCAGC 2 cut(s) 1080, 1239
GsuI CTGGAG 1 cut(s) 968
HaeII RGCGCY 1 cut(s) 939
HaeIII GGCC 2 cut(s) 355, 1256
HapII CCGG 2 cut(s) 749, 1090
HhaI GCGC 1 cut(s) 938
Hin6I GCGC 1 cut(s) 936
HinP1I GCGC 1 cut(s) 936
HindIII AAGCTT 1 cut(s) 49
HinfI GANTC 5 cut(s) 257, 790, 827, 1007, 1397
HpaII CCGG 2 cut(s) 749, 1090
HphI GGTGA 2 cut(s) 266, 1394
Hpy166II GTNNAC 6 cut(s) 200, 420, 1016, 1060, 1141, 1148
Hpy188I TCNGA 3 cut(s) 194, 606, 1316
Hpy188III TCNNGA 6 cut(s) 39, 166, 579, 888, 985, 1330
Hpy8I GTNNAC 6 cut(s) 200, 420, 1016, 1060, 1141, 1148
HpyAV CCTTC 2 cut(s) 274, 1073
HpyCH4III ACNGT 2 cut(s) 869, 1145
HpyCH4IV ACGT 3 cut(s) 65, 243, 1345
HpyF10VI GCNNNNNNNGC 4 cut(s) 20, 449, 514, 542
HpyF3I CTNAG 3 cut(s) 300, 395, 555
HpySE526I ACGT 3 cut(s) 65, 243, 1345
HspAI GCGC 1 cut(s) 936
Kzo9I GATC 4 cut(s) 183, 610, 901, 1222
LguI GCTCTTC 2 cut(s) 79, 1066
LmnI GCTCC 5 cut(s) 449, 933, 987, 1157, 1385
Lsp1109I GCAGC 1 cut(s) 1304
LweI GCATC 6 cut(s) 262, 773, 1015, 1261, 1279, 1377
MaeI CTAG 3 cut(s) 15, 230, 1296
MaeII ACGT 3 cut(s) 65, 243, 1345
MaeIII GTNAC 1 cut(s) 254
MalI GATC 4 cut(s) 185, 612, 903, 1224
MboI GATC 4 cut(s) 183, 610, 901, 1222
MflI RGATCY 2 cut(s) 610, 1222
MhlI GDGCHC 4 cut(s) 847, 969, 984, 1150
MlsI TGGCCA 1 cut(s) 1256
MluCI AATT 8 cut(s) 55, 293, 567, 596, 625, 678, 1083, 1208
MluNI TGGCCA 1 cut(s) 1256
MlyI GAGTC 3 cut(s) 251, 1016, 1406
MmeI TCCRAC 2 cut(s) 602, 981
Mox20I TGGCCA 1 cut(s) 1256
Mph1103I ATGCAT 1 cut(s) 963
MroXI GAANNNNTTC 2 cut(s) 284, 681
MscI TGGCCA 1 cut(s) 1256
MseI TTAA 4 cut(s) 54, 372, 438, 1082
MslI CAYNNNNRTG 3 cut(s) 854, 1023, 1469
Msp20I TGGCCA 1 cut(s) 1256
MspCI CTTAAG 1 cut(s) 437
MspI CCGG 2 cut(s) 749, 1090
MspR9I CCNGG 2 cut(s) 1091, 1227
Mva1269I GAATGC 2 cut(s) 538, 963
MvaI CCWGG 1 cut(s) 1227
MwoI GCNNNNNNNGC 4 cut(s) 20, 449, 514, 542
NciI CCSGG 1 cut(s) 1091
NdeII GATC 4 cut(s) 183, 610, 901, 1222
NlaIV GGNNCC 1 cut(s) 1224
NmuCI GTSAC 1 cut(s) 254
NsiI ATGCAT 1 cut(s) 963
NspI RCATGY 3 cut(s) 714, 1117, 1264
PaeI GCATGC 1 cut(s) 1117
PciSI GCTCTTC 2 cut(s) 79, 1066
PctI GAATGC 2 cut(s) 538, 963
PdmI GAANNNNTTC 2 cut(s) 284, 681
PfeI GAWTC 2 cut(s) 790, 827
PfoI TCCNGGA 1 cut(s) 1225
PkrI GCNGC 1 cut(s) 1294
PleI GAGTC 3 cut(s) 251, 1015, 1405
PpsI GAGTC 3 cut(s) 251, 1015, 1405
Ppu21I YACGTR 1 cut(s) 244
PpuMI RGGWCCY 1 cut(s) 701
Psp5II RGGWCCY 1 cut(s) 701
Psp6I CCWGG 1 cut(s) 1225
PspFI CCCAGC 2 cut(s) 1076, 1235
PspGI CCWGG 1 cut(s) 1225
PspN4I GGNNCC 1 cut(s) 1224
PspPI GGNCC 2 cut(s) 353, 701
PspPPI RGGWCCY 1 cut(s) 701
PsuI RGATCY 2 cut(s) 610, 1222
RsaI GTAC 2 cut(s) 242, 419
RsaNI GTAC 2 cut(s) 241, 418
RseI CAYNNNNRTG 3 cut(s) 854, 1023, 1469
SapI GCTCTTC 2 cut(s) 79, 1066
SaqAI TTAA 4 cut(s) 54, 372, 438, 1082
SatI GCNGC 1 cut(s) 1293
Sau3AI GATC 4 cut(s) 183, 610, 901, 1222
Sau96I GGNCC 2 cut(s) 353, 701
SchI GAGTC 3 cut(s) 251, 1016, 1406
ScrFI CCNGG 2 cut(s) 1091, 1227
SduI GDGCHC 4 cut(s) 847, 969, 984, 1150
SfaNI GCATC 6 cut(s) 262, 773, 1015, 1261, 1279, 1377
SinI GGWCC 1 cut(s) 701
SmiMI CAYNNNNRTG 3 cut(s) 854, 1023, 1469
SmlI CTYRAG 2 cut(s) 259, 437
SmoI CTYRAG 2 cut(s) 259, 437
SphI GCATGC 1 cut(s) 1117
Sse9I AATT 8 cut(s) 55, 293, 567, 596, 625, 678, 1083, 1208
SsiI CCGC 1 cut(s) 490
SspMI CTAG 3 cut(s) 15, 230, 1296
StyD4I CCNGG 2 cut(s) 1089, 1225
TaaI ACNGT 2 cut(s) 869, 1145
TaiI ACGT 3 cut(s) 68, 246, 1348
TaqI TCGA 5 cut(s) 288, 578, 591, 904, 1352
TasI AATT 8 cut(s) 55, 293, 567, 596, 625, 678, 1083, 1208
TfiI GAWTC 2 cut(s) 790, 827
Tru1I TTAA 4 cut(s) 54, 372, 438, 1082
Tru9I TTAA 4 cut(s) 54, 372, 438, 1082
TscAI CASTG 1 cut(s) 847
TseFI GTSAC 1 cut(s) 254
TseI GCWGC 1 cut(s) 1292
Tsp45I GTSAC 1 cut(s) 254
TspDTI ATGAA 8 cut(s) 17, 61, 110, 306, 473, 609, 782, 1281
TspGWI ACGGA 1 cut(s) 292
TspRI CASTG 1 cut(s) 847
Vha464I CTTAAG 1 cut(s) 437
VneI GTGCAC 1 cut(s) 1146
VpaK11BI GGWCC 1 cut(s) 701
XapI RAATTY 2 cut(s) 625, 678
XceI RCATGY 3 cut(s) 714, 1117, 1264
XmiI GTMKAC 3 cut(s) 199, 1059, 1140
XmnI GAANNNNTTC 2 cut(s) 284, 681
XspI CTAG 3 cut(s) 15, 230, 1296
Zsp2I ATGCAT 1 cut(s) 963
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.