Rw2G040790

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr2
OG0007987
Physical Location & Seq
Forward (+)
66403966 .. 66407898
3933 bp
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UTR
Exon/CDS
Intron
Rw2G040790.1

Sequence Viewer

Length: 1680 bp
ATGCCTCAAGCCCTTTTCTTAAAGCCCTTCATTTCCGCTCCTTTGGATAATTGGAGTAAATTGAAAGAATGCACAAATTCTATAGGTGCCAATGTGAAGATGCGTGGAAGACTGGAGGTGGTTTGTATGGGAATGCTGGCACCAAGAAAGTTCTTGCAGAAAAGGAAGAAAGTGGAGGTTTTTAAAGACGTTGGCGATGAGGCTGACCAGAAGAACTGGAGAAGACTGATGAATGAAATCGAAGAGAAGGGTTCTGCTGTTGCAGTGCTCAAAAGCGAAAGGCTCAAAAACAAGACGATTCCTAAGGATCTTGTTCTTGGAACGTTGGTTAGATTCAAGCAATTGAGGAAATGGAACCTTGTCGGTGAGATTCTTGAATGGCTTCAGACTCAGGACTGGTGGGACTTCAGCGAAATGGATTTTCTGATGCTTATAACAGCTTATGGAAAGCAAGGCAAATTCAACAGGGCTGAGAAGGTTTTAAGCTTGTTGAATGAAAAGGGCTATGCACCAAGTGTAATATCGCATACTGCTCTTATGGAAGCATATGGAAAAGGAGGCCGATACAATAATGCTGAAGCAATATTTCGAAGAATGCAGTCTTCAGGGCCTGAACCATCTGCTGTGACATATCAAATTATACTAAAAATATTTGTTGAGGGCTGCAAGTTTAAGGAAGCTGAAGAAATCTTTGAGACCCTTTTGGATGAGGAAAAGCCACCTTTAAAGCCAGACCAAAAGATGTTCCACATGATGATCTATATGTTTAAGAAGGCTGGAAGTTATGAAAAAGCTCGTAAGATGTTTGCAATGCAAAGAGCTGGTCTCCGACCTGATGTTGTGAGTTATGCTTTACTCATTAATGCTTATGGGAAAGCTAGAAGAGAGGAAGAAGCCTTAGCTGTTTTTGAGGAAATGCTTGATGCTGGTGTCAGACCTACCCGCAAAGCATACAATATTTTGCTTGACGCATTTGCAGTATCAGGAATGGTGGACCAAGCTCGAACTGTTTTTAAAAGCATGAGAAGGGACAGGTATGAACCCGATATATACTCGTATACCACTATGCTGTCAGCTTATGTAAATGCACCCGACATGGAAGGTGCTGAAAAATTCTTCACAAGACTAAAGCAAGATGGATTCAAACCCAATGTCGTCACTTATGGGACCTTAATCAAAGGTTATGCTAAGACAAATGATATTGAGAAGATGATGGAGAAATATGAGGAAATGCAGGCATGTGGTGTCAAACCAAATCAAACGATCTTGACAACCATAATGGATGCGTATGGCAAGAACATTGATTTTGGGAGTGCTGCTGTTTGGTACAAGGAAATGGAATCCTGCAGGCTTACTCCTGATCAGAAAGCAAAGAATATCCTTTTATCTTTGGCAAAAACTGTAGAAGAACAACAGTTAGCAAACCAAATTGTAGGATATTTGGATAATACTAGCAATGAACAAGGACTTGGTCGTTTATCAATCTCTGTTGAGCAGAGTAATGAGGATGAAGACAATTACGAAGATGATGAAGACGACGATGACAGTTATGATGAGGAAGTCGATGGTCCTTCACAGGTCACTTCATCATATGATGATGAACAAGAAAGTGAGCTGGTTTATTTAAATGCTGATAGTGAAAAAAACCTCGATGACTTACTTACAGTGGCTGAATTGTAA

Protein Analysis

559

Amino Acids

63.94

Weight (kDa)

5.08

Isoelectric Point (pI)

39.91

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 139 - 185 9.2e-06 Pentatricopeptide repeat domain
TPR_24 PF23276 149 - 269 3.2e-08 Fungal tetratrico peptide repeats
PPR_2 PF13041 171 - 217 2.3e-08 PPR repeat family
PPR_long PF17177 210 - 332 5.1e-06 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 271 - 325 3e-11 Pentatricopeptide repeat domain
TPR_24 PF23276 272 - 374 3.8e-07 Fungal tetratrico peptide repeats
PPR_1 PF12854 275 - 306 1.1e-06 PPR repeat
PPR_2 PF13041 278 - 326 4e-12 PPR repeat family
PPR PF01535 281 - 311 1.9e-06 PPR repeat
PPR_2 PF13041 317 - 361 2.6e-10 PPR repeat family
TPR_24 PF23276 318 - 410 7.3e-06 Fungal tetratrico peptide repeats
PPR_long PF17177 331 - 450 1.8e-09 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 337 - 395 2.6e-12 Pentatricopeptide repeat domain
PPR_2 PF13041 348 - 397 2.1e-13 PPR repeat family
PPR_3 PF13812 377 - 433 4.2e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 379 - 411 3.1e-06 PPR repeat
PPR_2 PF13041 383 - 420 5.2e-09 PPR repeat family
PPR PF01535 386 - 416 5.1e-06 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 434
AccB1I GGYRCC 2 cut(s) 86, 139
AccBSI CCGCTC 1 cut(s) 38
AccI GTMKAC 1 cut(s) 1058
AciI CCGC 2 cut(s) 36, 943
AclI AACGTT 1 cut(s) 323
AclWI GGATC 1 cut(s) 315
AcsI RAATTY 3 cut(s) 76, 458, 1112
AcuI CTGAAG 5 cut(s) 368, 391, 588, 597, 702
AdeI CACNNNGTG 1 cut(s) 515
AfaI GTAC 1 cut(s) 1328
AgsI TTSAA 6 cut(s) 64, 337, 377, 463, 493, 1144
AjuI GAANNNNNNNTTGG 2 cut(s) 1452, 1484
Alw21I GWGCWC 1 cut(s) 270
Alw26I GTCTC 2 cut(s) 689, 830
AlwI GGATC 1 cut(s) 315
AlwNI CAGNNNCTG 2 cut(s) 611, 1670
AoxI GGCC 2 cut(s) 559, 608
ApeKI GCWGC 2 cut(s) 663, 1316
ApoI RAATTY 3 cut(s) 76, 458, 1112
ArsI GACNNNNNNTTYG 4 cut(s) 808, 840, 1137, 1169
AseI ATTAAT 1 cut(s) 861
Asp700I GAANNNNTTC 1 cut(s) 381
AspS9I GGNCC 4 cut(s) 608, 994, 1167, 1568
AsuHPI GGTGA 1 cut(s) 377
AsuII TTCGAA 1 cut(s) 589
AvaII GGWCC 3 cut(s) 994, 1167, 1568
AxyI CCTNAGG 1 cut(s) 303
BanI GGYRCC 2 cut(s) 86, 139
BbsI GAAGAC 5 cut(s) 115, 229, 594, 1518, 1539
Bbv12I GWGCWC 1 cut(s) 270
BbvI GCAGC 2 cut(s) 650, 1303
BccI CCATC 4 cut(s) 625, 1130, 1207, 1559
BclI TGATCA 1 cut(s) 1360
BcoDI GTCTC 2 cut(s) 689, 830
BfaI CTAG 2 cut(s) 879, 1452
BfmI CTRYAG 3 cut(s) 81, 1345, 1401
BisI GCNGC 2 cut(s) 664, 1317
BlsI GCNGC 2 cut(s) 665, 1318
Bme18I GGWCC 3 cut(s) 994, 1167, 1568
BmgT120I GGNCC 4 cut(s) 608, 994, 1167, 1568
BmiI GGNNCC 4 cut(s) 88, 141, 356, 1168
BmsI GCATC 4 cut(s) 90, 417, 913, 1273
BpiI GAAGAC 5 cut(s) 115, 229, 594, 1518, 1539
BplI GAGNNNNNCTC 2 cut(s) 810, 842
BpmI CTGGAG 2 cut(s) 134, 238
Bpu10I CCTNAGC 1 cut(s) 898
Bpu14I TTCGAA 1 cut(s) 589
BsaI GGTCTC 2 cut(s) 689, 830
Bse1I ACTGG 3 cut(s) 117, 221, 401
Bse21I CCTNAGG 1 cut(s) 303
Bse3DI GCAATG 2 cut(s) 816, 1462
BseGI GGATG 3 cut(s) 712, 1288, 1513
BseMI GCAATG 2 cut(s) 816, 1462
BseMII CTCAG 2 cut(s) 404, 462
BseNI ACTGG 3 cut(s) 117, 221, 401
BseXI GCAGC 2 cut(s) 650, 1303
BshFI GGCC 2 cut(s) 561, 610
BshNI GGYRCC 2 cut(s) 86, 139
BsiHKAI GWGCWC 1 cut(s) 270
BslFI GGGAC 3 cut(s) 416, 1043, 1180
BsmAI GTCTC 2 cut(s) 689, 830
BsmFI GGGAC 3 cut(s) 416, 1043, 1180
BsmI GAATGC 3 cut(s) 74, 138, 600
BsnI GGCC 2 cut(s) 561, 610
Bso31I GGTCTC 2 cut(s) 689, 830
Bsp119I TTCGAA 1 cut(s) 589
Bsp1286I GDGCHC 1 cut(s) 270
Bsp143I GATC 4 cut(s) 307, 756, 1263, 1360
BspACI CCGC 2 cut(s) 36, 943
BspANI GGCC 2 cut(s) 561, 610
BspCNI CTCAG 2 cut(s) 403, 463
BspLI GGNNCC 4 cut(s) 88, 141, 356, 1168
BspMAI CTGCAG 1 cut(s) 1349
BspPI GGATC 1 cut(s) 315
BspT104I TTCGAA 1 cut(s) 589
BspT107I GGYRCC 2 cut(s) 86, 139
BspTNI GGTCTC 2 cut(s) 689, 830
BsrBI CCGCTC 1 cut(s) 38
BsrDI GCAATG 2 cut(s) 816, 1462
BsrI ACTGG 3 cut(s) 117, 221, 401
BssMI GATC 4 cut(s) 307, 756, 1263, 1360
BssNAI GTATAC 1 cut(s) 1059
Bst1107I GTATAC 1 cut(s) 1059
Bst4CI ACNGT 5 cut(s) 1009, 1402, 1416, 1547, 1666
Bst6I CTCTTC 2 cut(s) 237, 877
BstBI TTCGAA 1 cut(s) 589
BstC8I GCNNGC 3 cut(s) 138, 1236, 1349
BstDEI CTNAG 5 cut(s) 303, 390, 471, 898, 1188
BstF5I GGATG 3 cut(s) 712, 1288, 1513
BstKTI GATC 4 cut(s) 310, 759, 1266, 1363
BstMAI GTCTC 2 cut(s) 689, 830
BstMBI GATC 4 cut(s) 307, 756, 1263, 1360
BstNSI RCATGY 1 cut(s) 1242
BstSFI CTRYAG 3 cut(s) 81, 1345, 1401
BstV1I GCAGC 2 cut(s) 650, 1303
BstV2I GAAGAC 5 cut(s) 115, 229, 594, 1518, 1539
BstX2I RGATCY 1 cut(s) 307
BstYI RGATCY 1 cut(s) 307
BstZ17I GTATAC 1 cut(s) 1059
Bsu36I CCTNAGG 1 cut(s) 303
BsuRI GGCC 2 cut(s) 561, 610
BtgZI GCGATG 1 cut(s) 210
BtsCI GGATG 3 cut(s) 712, 1288, 1513
BtsI GCAGTG 1 cut(s) 270
BtsIMutI CAGTG 2 cut(s) 270, 1671
Cac8I GCNNGC 3 cut(s) 138, 1236, 1349
CaiI CAGNNNCTG 2 cut(s) 611, 1670
Cfr13I GGNCC 4 cut(s) 608, 994, 1167, 1568
CseI GACGC 1 cut(s) 977
Csp6I GTAC 1 cut(s) 1327
CviAII CATG 4 cut(s) 751, 1021, 1096, 1239
CviQI GTAC 1 cut(s) 1327
DdeI CTNAG 5 cut(s) 303, 390, 471, 898, 1188
DpnI GATC 4 cut(s) 309, 758, 1265, 1362
DpnII GATC 4 cut(s) 307, 756, 1263, 1360
DraI TTTAAA 4 cut(s) 184, 726, 1015, 1626
DraIII CACNNNGTG 1 cut(s) 515
Eam1104I CTCTTC 2 cut(s) 237, 877
EarI CTCTTC 2 cut(s) 237, 877
Eco31I GGTCTC 2 cut(s) 689, 830
Eco47I GGWCC 3 cut(s) 994, 1167, 1568
Eco57I CTGAAG 5 cut(s) 368, 391, 588, 597, 702
Eco81I CCTNAGG 1 cut(s) 303
EcoO109I RGGNCCY 2 cut(s) 608, 1167
FaeI CATG 4 cut(s) 754, 1024, 1099, 1242
FaqI GGGAC 3 cut(s) 416, 1043, 1180
FatI CATG 4 cut(s) 750, 1020, 1095, 1238
FauI CCCGC 1 cut(s) 950
FauNDI CATATG 2 cut(s) 547, 1591
FbaI TGATCA 1 cut(s) 1360
FblI GTMKAC 1 cut(s) 1058
Fnu4HI GCNGC 2 cut(s) 664, 1317
FokI GGATG 3 cut(s) 719, 1295, 1520
Fsp4HI GCNGC 2 cut(s) 664, 1317
FspBI CTAG 2 cut(s) 879, 1452
GluI GCNGC 2 cut(s) 664, 1317
GsuI CTGGAG 2 cut(s) 134, 238
HaeIII GGCC 2 cut(s) 561, 610
HgaI GACGC 1 cut(s) 977
Hin1II CATG 4 cut(s) 754, 1024, 1099, 1242
HindIII AAGCTT 1 cut(s) 484
HinfI GANTC 6 cut(s) 298, 333, 370, 388, 1140, 1340
HphI GGTGA 1 cut(s) 377
Hpy166II GTNNAC 2 cut(s) 994, 1059
Hpy188I TCNGA 5 cut(s) 387, 426, 830, 935, 1365
Hpy188III TCNNGA 5 cut(s) 374, 392, 984, 1267, 1358
Hpy8I GTNNAC 2 cut(s) 994, 1059
Hpy99I CGWCG 1 cut(s) 1541
HpyAV CCTTC 7 cut(s) 37, 241, 469, 766, 1020, 1094, 1581
HpyCH4III ACNGT 5 cut(s) 1009, 1402, 1416, 1547, 1666
HpyCH4IV ACGT 2 cut(s) 189, 323
HpyF3I CTNAG 5 cut(s) 303, 390, 471, 898, 1188
HpySE526I ACGT 2 cut(s) 189, 323
Hsp92II CATG 4 cut(s) 754, 1024, 1099, 1242
Ksp22I TGATCA 1 cut(s) 1360
Kzo9I GATC 4 cut(s) 307, 756, 1263, 1360
LmnI GCTCC 1 cut(s) 43
Lsp1109I GCAGC 2 cut(s) 650, 1303
LweI GCATC 4 cut(s) 90, 417, 913, 1273
MaeI CTAG 2 cut(s) 879, 1452
MaeII ACGT 2 cut(s) 189, 323
MaeIII GTNAC 3 cut(s) 625, 1156, 1579
MalI GATC 4 cut(s) 309, 758, 1265, 1362
MbiI CCGCTC 1 cut(s) 38
MboI GATC 4 cut(s) 307, 756, 1263, 1360
MfeI CAATTG 1 cut(s) 341
MflI RGATCY 1 cut(s) 307
MhlI GDGCHC 1 cut(s) 270
MlyI GAGTC 1 cut(s) 382
MmeI TCCRAC 1 cut(s) 853
MroXI GAANNNNTTC 1 cut(s) 381
MunI CAATTG 1 cut(s) 341
Mva1269I GAATGC 3 cut(s) 74, 138, 600
NdeI CATATG 2 cut(s) 547, 1591
NdeII GATC 4 cut(s) 307, 756, 1263, 1360
NlaIII CATG 4 cut(s) 754, 1024, 1099, 1242
NlaIV GGNNCC 4 cut(s) 88, 141, 356, 1168
NmuCI GTSAC 3 cut(s) 625, 1156, 1579
NspI RCATGY 1 cut(s) 1242
NspV TTCGAA 1 cut(s) 589
PctI GAATGC 3 cut(s) 74, 138, 600
PdmI GAANNNNTTC 1 cut(s) 381
PfeI GAWTC 5 cut(s) 298, 333, 370, 1140, 1340
PflFI GACNNNGTC 1 cut(s) 1470
PkrI GCNGC 2 cut(s) 665, 1318
PleI GAGTC 1 cut(s) 382
PpsI GAGTC 1 cut(s) 382
PpuMI RGGWCCY 1 cut(s) 1167
PshBI ATTAAT 1 cut(s) 861
PsiI TTATAA 1 cut(s) 434
Psp1406I AACGTT 1 cut(s) 323
Psp5II RGGWCCY 1 cut(s) 1167
PspN4I GGNNCC 4 cut(s) 88, 141, 356, 1168
PspPI GGNCC 4 cut(s) 608, 994, 1167, 1568
PspPPI RGGWCCY 1 cut(s) 1167
PstI CTGCAG 1 cut(s) 1349
PstNI CAGNNNCTG 2 cut(s) 611, 1670
PsuI RGATCY 1 cut(s) 307
PsyI GACNNNGTC 1 cut(s) 1470
RsaI GTAC 1 cut(s) 1328
RsaNI GTAC 1 cut(s) 1327
SatI GCNGC 2 cut(s) 664, 1317
Sau3AI GATC 4 cut(s) 307, 756, 1263, 1360
Sau96I GGNCC 4 cut(s) 608, 994, 1167, 1568
SbfI CCTGCAGG 1 cut(s) 1349
SchI GAGTC 1 cut(s) 382
SdaI CCTGCAGG 1 cut(s) 1349
SduI GDGCHC 1 cut(s) 270
SfaNI GCATC 4 cut(s) 90, 417, 913, 1273
SfcI CTRYAG 3 cut(s) 81, 1345, 1401
SfuI TTCGAA 1 cut(s) 589
SinI GGWCC 3 cut(s) 994, 1167, 1568
SmiI ATTTAAAT 1 cut(s) 1626
SmlI CTYRAG 1 cut(s) 6
SmoI CTYRAG 1 cut(s) 6
Sse8387I CCTGCAGG 1 cut(s) 1349
SsiI CCGC 2 cut(s) 36, 943
SspI AATATT 3 cut(s) 585, 651, 958
SspMI CTAG 2 cut(s) 879, 1452
SwaI ATTTAAAT 1 cut(s) 1626
TaaI ACNGT 5 cut(s) 1009, 1402, 1416, 1547, 1666
TaiI ACGT 2 cut(s) 192, 326
TaqI TCGA 5 cut(s) 240, 589, 1003, 1563, 1650
TfiI GAWTC 5 cut(s) 298, 333, 370, 1140, 1340
TscAI CASTG 2 cut(s) 270, 1671
TseFI GTSAC 3 cut(s) 625, 1156, 1579
TseI GCWGC 2 cut(s) 663, 1316
Tsp45I GTSAC 3 cut(s) 625, 1156, 1579
TspRI CASTG 2 cut(s) 270, 1671
Tth111I GACNNNGTC 1 cut(s) 1470
VpaK11BI GGWCC 3 cut(s) 994, 1167, 1568
VspI ATTAAT 1 cut(s) 861
XapI RAATTY 3 cut(s) 76, 458, 1112
XceI RCATGY 1 cut(s) 1242
XmiI GTMKAC 1 cut(s) 1058
XmnI GAANNNNTTC 1 cut(s) 381
XspI CTAG 2 cut(s) 879, 1452
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.