Rroxscaffold_6G00419450

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0015649
Physical Location & Seq
Reverse (-)
40919336 .. 40922604
3269 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00419450.1

Sequence Viewer

Length: 1530 bp
ATGGACCTCTCTCTGTCTCTGATGCCTTCTCCATATCCTGTAAGCTTCAAACTTGTTCAGACTCCCTCTCCATACAGAAGCAGATACAAAAGAACCCAACCAGGTAAGCTACTTACTTTCACAACACTTTCATGCTCTGCTAGAAACCTTGCTGATAAAACACACCAGACATCCCCAAAAGATTATGGCTTTCACTCCCATAGTGAAGAACCCAAGTTGGGTATTGATGAAATTACTAGTAGATTGCATGTACAGAGTTTAGTTGACAGAATTAGAGCTTTGCACACTGGAGAGACAAGTGAAATTCTTAGTATTTTTGAGCAAGATGGTTGCTTTAGAACCATTTCTGAGCTCAATGATCTGCTCATGGCTTTAGTTGTAGCAAAAGAGTTTGATATTGCTTTGAGCTTGTATAATCAAATGTCATCTTGCTGTTTAGTTCCTGATTCTTCCACATTTTCTATTGTGATTACCTGTTACTGTGAGAAAATTGATCTGGATGAGGCCAAGAGGGTTTTAGTCCATATGATTGAAAATGGGTTTAACCCAAGTGTTGCAACAGTGACTTTTGTGATAGATTCATTATGCAAAAAGGGTAGATTGCAGAGAGCTTTGGAGGTTTTTGAGGTGATGGGTAGAGTTGGGTCCAAGCCCACTGTTCAAATGTACAATTGCTTGTTAAAGGGTTTGTGCTATGTGGGAAGAGTGGAGGATGCATATGAAATGTTGATGAAGATAAAGAAGGGTGTTCTAGAACCGGACATTTTTACATACACAGCTGTTATGGATGGTTTTTGTAAAGTGGGTCGCACAGATGAGGCGATGGAACTGCTTAATGAAGCTGTGGAGTTGGGATTAATACCAGATGTGGTTGCTTTCAATACTCTATTTGATGGGTACTGCAGGGAGGGTAGGGCAATGGAGGGACTGAATGTGTTGAAGCAGATGAAGGAGAGAAACTGCATCCCTGATTATATTACTTATAGCACATTGTTACATGGATTGTTGAAATGGGGTAAGACCCGTAATGCGCTAAGGATTTATAAGGAGATGGTGGAAATTGGTTTCAAAGTGGATGAGAGATTGACGAATGCTCTTGTGAGAGGGTTATGCAGGAGATCATCGAAGGAAAAAGACCTGTTGGAAGATGCCTGTGAACTGTTTGAAAAATTGCAGAATGGGGTTTCTGACATAGAAGCTAGTACATATGGGCTTATGATCCAAAGTCTTTGCATGGAAAAGAAGATTGATGACGCTATGATCAATTTGAAGCAGATGATGGCAGTGGGTTATTCACCATGGATGATCACCTTTAACAAAGTGATTCAAACCCTCTGTTCTGAGGACAAGATGATTGATGCATTATTAGTTTTAGGTACTGCGTATGAATGTGATAGAGTAGCAAGTAGAGCAACTTATAACGTTTTGATTCAAAAGTTGAATCAACATAGCAATATGCTAGAAGCTTGTAGTGTATATGGTGCGGCATTGAAGAGAGGTTTAATTCCGAATAAAAGGCCTCAACATTGA
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_1 PPR_2 PPR_3

Protein Analysis

509

Amino Acids

57.45

Weight (kDa)

6.54

Isoelectric Point (pI)

37.07

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 119 - 161 5e-06 PPR repeat family
PPR_long PF17177 132 - 263 2.6e-09 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 145 - 176 1e-05 PPR repeat
PPR_2 PF13041 148 - 197 1.4e-09 PPR repeat family
PPR_3 PF13812 172 - 228 1.4e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 179 - 211 1.1e-07 PPR repeat
PPR_2 PF13041 183 - 231 3.4e-10 PPR repeat family
PPR_1 PF12854 215 - 243 8.5e-07 PPR repeat
PPR_2 PF13041 218 - 267 3e-13 PPR repeat family
PPR_1 PF12854 251 - 280 1.2e-10 PPR repeat
PPR_2 PF13041 253 - 291 8.4e-09 PPR repeat family
PPR PF01535 256 - 286 3.6e-07 PPR repeat
PPR_3 PF13812 277 - 332 1.6e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 285 - 317 2.7e-08 PPR repeat
PPR_2 PF13041 288 - 337 5.9e-16 PPR repeat family
PPR PF01535 291 - 321 6.3e-07 PPR repeat
PPR_2 PF13041 323 - 372 3.7e-08 PPR repeat family
PPR PF01535 326 - 356 7.9e-06 PPR repeat
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: OG0015649)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g09870
malus_domestica MD04G1174700.v1.1
prunus_persica Prupe.6G293600_v2.0.a1
pyrus_communis pycom04g15410
rosa_chinensis RchiOBHm_Chr3g0460471
rosa_laevigata RLG00000025002 RLG00000025008
rosa_multiflora Rmu_co8379257.1_g000001 Rmu_sc0004267.1_g000007
rosa_roxburghii Rroxscaffold_6G00419450
rosa_rugosa Rorug03G0042900
rosa_samantha Rh3AG101000 Rh3BG105000 Rh3CG106800 Rh3DG106300
rosa_wichuraiana Rw3G008590

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 1044, 1419
AciI CCGC 1 cut(s) 1484
AclI AACGTT 1 cut(s) 1422
AclWI GGATC 1 cut(s) 1213
AcsI RAATTY 1 cut(s) 303
AfaI GTAC 5 cut(s) 252, 668, 899, 1204, 1378
AfiI CCNNNNNNNGG 1 cut(s) 218
AhlI ACTAGT 1 cut(s) 236
AjnI CCWGG 1 cut(s) 100
Alw21I GWGCWC 1 cut(s) 354
Alw26I GTCTC 2 cut(s) 21, 287
AlwI GGATC 1 cut(s) 1213
AoxI GGCC 2 cut(s) 504, 1517
ApoI RAATTY 1 cut(s) 303
AseI ATTAAT 1 cut(s) 857
Asp700I GAANNNNTTC 1 cut(s) 343
AspLEI GCGC 1 cut(s) 1033
AspS9I GGNCC 2 cut(s) 4, 645
AsuHPI GGTGA 3 cut(s) 640, 1287, 1300
AvaII GGWCC 2 cut(s) 4, 645
BanII GRGCYC 1 cut(s) 354
Bbv12I GWGCWC 1 cut(s) 354
BccI CCATC 7 cut(s) 320, 625, 782, 817, 887, 1045, 1273
BcgI CGANNNNNNTGC 2 cut(s) 811, 845
BciT130I CCWGG 1 cut(s) 102
BclI TGATCA 2 cut(s) 1260, 1305
BcoDI GTCTC 2 cut(s) 21, 287
BcuI ACTAGT 1 cut(s) 236
BfaI CTAG 5 cut(s) 141, 237, 752, 1200, 1460
BfmI CTRYAG 1 cut(s) 901
BisI GCNGC 1 cut(s) 1485
BlsI GCNGC 1 cut(s) 1486
Bme1390I CCNGG 1 cut(s) 102
Bme18I GGWCC 2 cut(s) 4, 645
BmgT120I GGNCC 2 cut(s) 4, 645
BmiI GGNNCC 1 cut(s) 646
BmrFI CCNGG 1 cut(s) 102
BmsI GCATC 5 cut(s) 12, 703, 972, 1138, 1348
BpmI CTGGAG 1 cut(s) 309
Bpu10I CCTNAGC 1 cut(s) 1034
BsaJI CCNNGG 1 cut(s) 1298
BsaWI WCCGGW 1 cut(s) 757
BsaXI ACNNNNNCTCC 2 cut(s) 52, 82
Bsc4I CCNNNNNNNGG 1 cut(s) 218
Bse1I ACTGG 1 cut(s) 292
Bse3DI GCAATG 1 cut(s) 924
BseBI CCWGG 1 cut(s) 102
BseDI CCNNGG 1 cut(s) 1298
BseGI GGATG 7 cut(s) 170, 505, 718, 793, 963, 1081, 1308
BseLI CCNNNNNNNGG 1 cut(s) 218
BseMI GCAATG 1 cut(s) 924
BseMII CTCAG 2 cut(s) 339, 1332
BseNI ACTGG 1 cut(s) 292
BshFI GGCC 2 cut(s) 506, 1519
BsiHKAI GWGCWC 1 cut(s) 354
BsiSI CCGG 1 cut(s) 758
BslFI GGGAC 1 cut(s) 939
BslI CCNNNNNNNGG 1 cut(s) 218
BsmAI GTCTC 2 cut(s) 21, 287
BsmFI GGGAC 1 cut(s) 939
BsmI GAATGC 1 cut(s) 1096
BsnI GGCC 2 cut(s) 506, 1519
Bsp1286I GDGCHC 1 cut(s) 354
Bsp1407I TGTACA 2 cut(s) 250, 666
Bsp143I GATC 6 cut(s) 358, 493, 1118, 1218, 1260, 1305
Bsp19I CCATGG 1 cut(s) 1298
BspACI CCGC 1 cut(s) 1484
BspANI GGCC 2 cut(s) 506, 1519
BspCNI CTCAG 2 cut(s) 340, 1333
BspLI GGNNCC 1 cut(s) 646
BspMAI CTGCAG 1 cut(s) 905
BspPI GGATC 1 cut(s) 1213
BsrDI GCAATG 1 cut(s) 924
BsrGI TGTACA 2 cut(s) 250, 666
BsrI ACTGG 1 cut(s) 292
BssECI CCNNGG 1 cut(s) 1298
BssMI GATC 6 cut(s) 358, 493, 1118, 1218, 1260, 1305
BssT1I CCWWGG 1 cut(s) 1298
Bst2UI CCWGG 1 cut(s) 102
Bst4CI ACNGT 4 cut(s) 482, 562, 658, 1161
Bst6I CTCTTC 2 cut(s) 697, 1487
BstAUI TGTACA 2 cut(s) 250, 666
BstDEI CTNAG 4 cut(s) 308, 348, 1034, 1341
BstDSI CCRYGG 1 cut(s) 1298
BstF5I GGATG 7 cut(s) 170, 505, 718, 793, 963, 1081, 1308
BstHHI GCGC 1 cut(s) 1033
BstKTI GATC 6 cut(s) 361, 496, 1121, 1221, 1263, 1308
BstMAI GTCTC 2 cut(s) 21, 287
BstMBI GATC 6 cut(s) 358, 493, 1118, 1218, 1260, 1305
BstMWI GCNNNNNNNGC 1 cut(s) 1409
BstNI CCWGG 1 cut(s) 102
BstNSI RCATGY 1 cut(s) 251
BstSCI CCNGG 1 cut(s) 100
BstSFI CTRYAG 1 cut(s) 901
BsuRI GGCC 2 cut(s) 506, 1519
BtgI CCRYGG 1 cut(s) 1298
BtgZI GCGATG 1 cut(s) 836
BtsCI GGATG 7 cut(s) 170, 505, 718, 793, 963, 1081, 1308
BtsI GCAGTG 1 cut(s) 1290
BtsIMutI CAGTG 4 cut(s) 285, 567, 654, 1290
CfoI GCGC 1 cut(s) 1033
Cfr13I GGNCC 2 cut(s) 4, 645
CseI GACGC 1 cut(s) 1262
CsiI ACCWGGT 1 cut(s) 100
Csp6I GTAC 5 cut(s) 251, 667, 898, 1203, 1377
CviAII CATG 6 cut(s) 132, 248, 367, 998, 1234, 1299
CviQI GTAC 5 cut(s) 251, 667, 898, 1203, 1377
DdeI CTNAG 4 cut(s) 308, 348, 1034, 1341
DpnI GATC 6 cut(s) 360, 495, 1120, 1220, 1262, 1307
DpnII GATC 6 cut(s) 358, 493, 1118, 1218, 1260, 1305
Eam1104I CTCTTC 2 cut(s) 697, 1487
EarI CTCTTC 2 cut(s) 697, 1487
Ecl136II GAGCTC 1 cut(s) 352
Eco130I CCWWGG 1 cut(s) 1298
Eco147I AGGCCT 1 cut(s) 1519
Eco24I GRGCYC 1 cut(s) 354
Eco47I GGWCC 2 cut(s) 4, 645
Eco53kI GAGCTC 1 cut(s) 352
EcoICRI GAGCTC 1 cut(s) 352
EcoRII CCWGG 1 cut(s) 100
EcoT14I CCWWGG 1 cut(s) 1298
EcoT22I ATGCAT 2 cut(s) 718, 1363
EcoT38I GRGCYC 1 cut(s) 354
ErhI CCWWGG 1 cut(s) 1298
FaeI CATG 6 cut(s) 135, 251, 370, 1001, 1237, 1302
FaqI GGGAC 1 cut(s) 939
FatI CATG 6 cut(s) 131, 247, 366, 997, 1233, 1298
FauNDI CATATG 3 cut(s) 525, 718, 1207
FbaI TGATCA 2 cut(s) 1260, 1305
Fnu4HI GCNGC 1 cut(s) 1485
FokI GGATG 7 cut(s) 157, 512, 725, 800, 950, 1088, 1315
FriOI GRGCYC 1 cut(s) 354
Fsp4HI GCNGC 1 cut(s) 1485
FspBI CTAG 5 cut(s) 141, 237, 752, 1200, 1460
GlaI GCGC 1 cut(s) 1032
GluI GCNGC 1 cut(s) 1485
GsuI CTGGAG 1 cut(s) 309
HaeIII GGCC 2 cut(s) 506, 1519
HapII CCGG 1 cut(s) 758
HgaI GACGC 1 cut(s) 1262
HhaI GCGC 1 cut(s) 1033
Hin1II CATG 6 cut(s) 135, 251, 370, 1001, 1237, 1302
Hin6I GCGC 1 cut(s) 1031
HinP1I GCGC 1 cut(s) 1031
HincII GTYRAC 1 cut(s) 265
HindII GTYRAC 1 cut(s) 265
HindIII AAGCTT 2 cut(s) 43, 1464
HinfI GANTC 6 cut(s) 61, 446, 578, 1324, 1429, 1441
HpaII CCGG 1 cut(s) 758
HphI GGTGA 3 cut(s) 640, 1287, 1300
Hpy166II GTNNAC 2 cut(s) 265, 1157
Hpy188I TCNGA 6 cut(s) 21, 60, 349, 1189, 1342, 1509
Hpy188III TCNNGA 3 cut(s) 443, 497, 752
Hpy8I GTNNAC 2 cut(s) 265, 1157
HpyAV CCTTC 4 cut(s) 36, 736, 943, 1120
HpyCH4III ACNGT 4 cut(s) 482, 562, 658, 1161
HpyCH4IV ACGT 1 cut(s) 1422
HpyF10VI GCNNNNNNNGC 1 cut(s) 1409
HpyF3I CTNAG 4 cut(s) 308, 348, 1034, 1341
HpySE526I ACGT 1 cut(s) 1422
Hsp92II CATG 6 cut(s) 135, 251, 370, 1001, 1237, 1302
HspAI GCGC 1 cut(s) 1031
Ksp22I TGATCA 2 cut(s) 1260, 1305
Kzo9I GATC 6 cut(s) 358, 493, 1118, 1218, 1260, 1305
LweI GCATC 5 cut(s) 12, 703, 972, 1138, 1348
MabI ACCWGGT 1 cut(s) 100
MaeI CTAG 5 cut(s) 141, 237, 752, 1200, 1460
MaeII ACGT 1 cut(s) 1422
MaeIII GTNAC 3 cut(s) 476, 562, 993
MalI GATC 6 cut(s) 360, 495, 1120, 1220, 1262, 1307
MboI GATC 6 cut(s) 358, 493, 1118, 1218, 1260, 1305
MboII GAAGA 7 cut(s) 218, 441, 714, 745, 1157, 1255, 1504
MfeI CAATTG 1 cut(s) 670
MhlI GDGCHC 1 cut(s) 354
MluCI AATT 9 cut(s) 231, 270, 303, 489, 670, 1059, 1169, 1264, 1503
MlyI GAGTC 1 cut(s) 55
MmeI TCCRAC 1 cut(s) 1122
Mph1103I ATGCAT 2 cut(s) 718, 1363
MroXI GAANNNNTTC 1 cut(s) 343
MseI TTAA 6 cut(s) 543, 680, 834, 857, 1314, 1502
MslI CAYNNNNRTG 1 cut(s) 130
MspA1I CMGCKG 1 cut(s) 779
MspI CCGG 1 cut(s) 758
MspR9I CCNGG 1 cut(s) 102
MunI CAATTG 1 cut(s) 670
Mva1269I GAATGC 1 cut(s) 1096
MvaI CCWGG 1 cut(s) 102
MwoI GCNNNNNNNGC 1 cut(s) 1409
NcoI CCATGG 1 cut(s) 1298
NdeI CATATG 3 cut(s) 525, 718, 1207
NdeII GATC 6 cut(s) 358, 493, 1118, 1218, 1260, 1305
NlaIII CATG 6 cut(s) 135, 251, 370, 1001, 1237, 1302
NlaIV GGNNCC 1 cut(s) 646
NmuCI GTSAC 1 cut(s) 562
NsiI ATGCAT 2 cut(s) 718, 1363
NspI RCATGY 1 cut(s) 251
PceI AGGCCT 1 cut(s) 1519
PctI GAATGC 1 cut(s) 1096
PdmI GAANNNNTTC 1 cut(s) 343
PfeI GAWTC 5 cut(s) 446, 578, 1324, 1429, 1441
PkrI GCNGC 1 cut(s) 1486
PleI GAGTC 1 cut(s) 55
PpsI GAGTC 1 cut(s) 55
PshBI ATTAAT 1 cut(s) 857
PsiI TTATAA 2 cut(s) 1044, 1419
Psp124BI GAGCTC 1 cut(s) 354
Psp1406I AACGTT 1 cut(s) 1422
Psp6I CCWGG 1 cut(s) 100
PspGI CCWGG 1 cut(s) 100
PspN4I GGNNCC 1 cut(s) 646
PspPI GGNCC 2 cut(s) 4, 645
PstI CTGCAG 1 cut(s) 905
PvuII CAGCTG 1 cut(s) 779
RsaI GTAC 5 cut(s) 252, 668, 899, 1204, 1378
RsaNI GTAC 5 cut(s) 251, 667, 898, 1203, 1377
RseI CAYNNNNRTG 1 cut(s) 130
SacI GAGCTC 1 cut(s) 354
SaqAI TTAA 6 cut(s) 543, 680, 834, 857, 1314, 1502
SatI GCNGC 1 cut(s) 1485
Sau3AI GATC 6 cut(s) 358, 493, 1118, 1218, 1260, 1305
Sau96I GGNCC 2 cut(s) 4, 645
SchI GAGTC 1 cut(s) 55
ScrFI CCNGG 1 cut(s) 102
SduI GDGCHC 1 cut(s) 354
SexAI ACCWGGT 1 cut(s) 100
SfaNI GCATC 5 cut(s) 12, 703, 972, 1138, 1348
SfcI CTRYAG 1 cut(s) 901
SinI GGWCC 2 cut(s) 4, 645
SmiMI CAYNNNNRTG 1 cut(s) 130
SpeI ACTAGT 1 cut(s) 236
Sse9I AATT 9 cut(s) 231, 270, 303, 489, 670, 1059, 1169, 1264, 1503
SseBI AGGCCT 1 cut(s) 1519
SsiI CCGC 1 cut(s) 1484
SspMI CTAG 5 cut(s) 141, 237, 752, 1200, 1460
SstI GAGCTC 1 cut(s) 354
StuI AGGCCT 1 cut(s) 1519
StyD4I CCNGG 1 cut(s) 100
StyI CCWWGG 1 cut(s) 1298
TaaI ACNGT 4 cut(s) 482, 562, 658, 1161
TaiI ACGT 1 cut(s) 1425
TaqI TCGA 1 cut(s) 1124
TasI AATT 9 cut(s) 231, 270, 303, 489, 670, 1059, 1169, 1264, 1503
TatI WGTACW 3 cut(s) 250, 666, 1202
TauI GCSGC 1 cut(s) 1487
TfiI GAWTC 5 cut(s) 446, 578, 1324, 1429, 1441
Tru1I TTAA 6 cut(s) 543, 680, 834, 857, 1314, 1502
Tru9I TTAA 6 cut(s) 543, 680, 834, 857, 1314, 1502
TscAI CASTG 4 cut(s) 292, 567, 661, 1290
TseFI GTSAC 1 cut(s) 562
Tsp45I GTSAC 1 cut(s) 562
TspDTI ATGAA 8 cut(s) 120, 243, 570, 735, 746, 852, 962, 1401
TspRI CASTG 4 cut(s) 292, 567, 661, 1290
VpaK11BI GGWCC 2 cut(s) 4, 645
VspI ATTAAT 1 cut(s) 857
XapI RAATTY 1 cut(s) 303
XbaI TCTAGA 1 cut(s) 751
XceI RCATGY 1 cut(s) 251
XmnI GAANNNNTTC 1 cut(s) 343
XspI CTAG 5 cut(s) 141, 237, 752, 1200, 1460
Zsp2I ATGCAT 2 cut(s) 718, 1363
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.