Rroxscaffold_4G00327680

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0004806
Physical Location & Seq
Forward (+)
60454516 .. 60455844
1329 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00327680.1

Sequence Viewer

Length: 1329 bp
ATGATGGCAAGTGGCGTCAAGGGTGATGATTATACTTTTGGTATCTTGATGAAAGGTCTTTGTTTGACGAATCGGATTGGTGATGGGTTTAAGCTTTTGCAAGCTATTAAGTCGAGGGGAGTTGCGCCGAATACTGTGGTTTATAACACATTGCTGCATGCACTTTGCAGGAATGGGAAAGTTGGGAGAGCCAGAAGCTTGATGAATGACATGGAAGACCCCAATGATGTGACTTTTAATATTTTGATATCTGGTTATTGTGGAGAAGAGAATTTAGTGCAGGCGCTTGTTATGTTAGAGAAGTGCTTTGGTCTGGGGTATGTGCCTGATGTTGTCACGACAACCAAGGTGTTGGAAATTCTGTGCAATGATGGTCGGGTAATGGAGGCTGTCAAGGTTATAGAGAGAGTGGAGAGCAATGGAAGGTTGGTTGATGTTGTGGCATATAATACCTTGATTAAGGGTTACTGTCGGTTAGGGAAAGCAAAACTTGGTCTTCGCATTTTGAAGGAGATGGAGAGAAAAGGGTGTCTTCCAAATGTTGATACCTACAATGTCTTGATCTCGGGTTTTTGTGAGTCTGGGATGTTGGATAAAGCTCTTGATCTGTTTAATGATATGAAAACAGATGGCATCAATTGGAATTTTGCTACATATGATACGTTAATAAGAGGCTTGTGTTCAGGAGGAAGAACTGAAGATGGGTTAAAAATTTTGGATTTGATGAATGAAAGCAAAGATGGTTGTAGGGGTCGAATAGGTCCTTTTAATAGTGTCTTGTATGGCATGTATAAGGAAAAACATTTGGACGAAGCACTTGAGTTTCTTGCCAATATGGGTAAACTATTTCCCAGAGCTGTTGATAGGAGCTTTAGGATTCTAGGTTTCTGTGAGGAGGGTGCCACTGAGAATGCAAAGAAGGTCTATGATCAGATGATTGTGGAAAGGGCAGTCCCATGTGTTTTGATTTATGACTATCTAATCCATAGATTTTGCCAACAAGGGCGTGTTCTTCAAGCCTTTGAGCTTATGAATGAGATGATTGCTCATTGTTACTTTCCTGTTTCATCGACTTTCAATGTTCTGATTAACGGGTTTTGTGAGCAAGGAAAAGTTGGTAGTGCGCTAAAGCTCCTCGATGAGATGATTGGTAGAGGTTGTTTACCTGATATAGAAAGTTATAGTCATTTGGTAGGTGCTCTTTGCCAGAAGGGGGATTTTCAGAAAGCTTTAAAACTCATTTTGCAATTGGTAGAAAGGGTATCACTCCTGATTATTTCACATGGAACTCGTTGCTTCTTTGTTCAAGTCGAGAGACTGTATGGTTAA

Protein Analysis

442

Amino Acids

49.34

Weight (kDa)

6.96

Isoelectric Point (pI)

20.78

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 31 - 87 1.4e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 39 - 72 7.4e-11 PPR repeat
PPR_2 PF13041 43 - 87 1.8e-14 PPR repeat family
PPR PF01535 46 - 72 6.9e-06 PPR repeat
PPR_1 PF12854 74 - 101 2.7e-06 PPR repeat
TPR_24 PF23276 76 - 171 1.4e-07 Fungal tetratrico peptide repeats
PPR_long PF17177 129 - 240 7.9e-06 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 144 - 190 6.4e-13 Pentatricopeptide repeat domain
PPR_1 PF12854 144 - 173 2.2e-07 PPR repeat
PPR_2 PF13041 145 - 192 6.4e-19 PPR repeat family
PPR PF01535 147 - 177 1.4e-08 PPR repeat
PPR_1 PF12854 175 - 208 7e-14 PPR repeat
PPR_2 PF13041 179 - 227 2.5e-17 PPR repeat family
PPR PF01535 183 - 212 3.6e-10 PPR repeat
PPR_1 PF12854 352 - 382 9.4e-10 PPR repeat
PPR_2 PF13041 356 - 403 1.1e-13 PPR repeat family
PPR PF01535 357 - 387 4.2e-08 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 144
AccB1I GGYRCC 1 cut(s) 899
AcsI RAATTY 4 cut(s) 271, 357, 643, 711
AcuI CTGAAG 1 cut(s) 717
AcyI GRCGYC 1 cut(s) 15
AfiI CCNNNNNNNGG 1 cut(s) 1213
AgsI TTSAA 4 cut(s) 508, 1016, 1078, 1307
AluBI AGCT 9 cut(s) 94, 104, 198, 599, 857, 870, 1027, 1132, 1229
AluI AGCT 9 cut(s) 94, 104, 198, 599, 857, 870, 1027, 1132, 1229
Alw21I GWGCWC 1 cut(s) 1201
Alw26I GTCTC 1 cut(s) 1309
Ama87I CYCGRG 1 cut(s) 565
ApeKI GCWGC 1 cut(s) 154
ApoI RAATTY 4 cut(s) 271, 357, 643, 711
AspLEI GCGC 3 cut(s) 127, 286, 1126
AspS9I GGNCC 1 cut(s) 761
AsuHPI GGTGA 2 cut(s) 35, 92
AvaI CYCGRG 1 cut(s) 565
AvaII GGWCC 1 cut(s) 761
BanI GGYRCC 1 cut(s) 899
BbsI GAAGAC 3 cut(s) 222, 488, 524
Bbv12I GWGCWC 1 cut(s) 1201
BbvI GCAGC 1 cut(s) 141
BccI CCATC 6 cut(s) 77, 365, 508, 623, 695, 734
BclI TGATCA 1 cut(s) 928
BcoDI GTCTC 1 cut(s) 1309
BfaI CTAG 1 cut(s) 881
BfoI RGCGCY 1 cut(s) 287
BisI GCNGC 1 cut(s) 155
BlsI GCNGC 1 cut(s) 156
Bme18I GGWCC 1 cut(s) 761
BmeT110I CYCGRG 1 cut(s) 565
BmgT120I GGNCC 1 cut(s) 761
BmiI GGNNCC 1 cut(s) 901
BmsI GCATC 1 cut(s) 642
BpiI GAAGAC 3 cut(s) 222, 488, 524
BpuEI CTTGAG 1 cut(s) 839
BsaHI GRCGYC 1 cut(s) 15
BsaJI CCNNGG 1 cut(s) 345
Bsc4I CCNNNNNNNGG 1 cut(s) 1213
Bse3DI GCAATG 3 cut(s) 149, 373, 424
BseDI CCNNGG 1 cut(s) 345
BseGI GGATG 1 cut(s) 591
BseLI CCNNNNNNNGG 1 cut(s) 1213
BseMI GCAATG 3 cut(s) 149, 373, 424
BseMII CTCAG 1 cut(s) 897
BseRI GAGGAG 2 cut(s) 908, 1124
BseXI GCAGC 1 cut(s) 141
BsgI GTGCAG 1 cut(s) 299
BshNI GGYRCC 1 cut(s) 899
BsiHKAI GWGCWC 1 cut(s) 1201
BsiHKCI CYCGRG 1 cut(s) 565
BslFI GGGAC 1 cut(s) 938
BslI CCNNNNNNNGG 1 cut(s) 1213
BsmAI GTCTC 1 cut(s) 1309
BsmFI GGGAC 1 cut(s) 938
BsmI GAATGC 1 cut(s) 916
BsoBI CYCGRG 1 cut(s) 565
Bsp1286I GDGCHC 1 cut(s) 1201
Bsp143I GATC 3 cut(s) 561, 604, 928
BspCNI CTCAG 1 cut(s) 898
BspLI GGNNCC 1 cut(s) 901
BspT107I GGYRCC 1 cut(s) 899
BsrDI GCAATG 3 cut(s) 149, 373, 424
BssECI CCNNGG 1 cut(s) 345
BssMI GATC 3 cut(s) 561, 604, 928
BssNI GRCGYC 1 cut(s) 15
BssT1I CCWWGG 1 cut(s) 345
Bst4CI ACNGT 3 cut(s) 136, 470, 1320
Bst6I CTCTTC 1 cut(s) 261
BstACI GRCGYC 1 cut(s) 15
BstC8I GCNNGC 3 cut(s) 102, 159, 282
BstDEI CTNAG 1 cut(s) 906
BstF5I GGATG 1 cut(s) 591
BstH2I RGCGCY 1 cut(s) 287
BstHHI GCGC 3 cut(s) 127, 286, 1126
BstKTI GATC 3 cut(s) 564, 607, 931
BstMAI GTCTC 1 cut(s) 1309
BstMBI GATC 3 cut(s) 561, 604, 928
BstNSI RCATGY 2 cut(s) 161, 790
BstV1I GCAGC 1 cut(s) 141
BstV2I GAAGAC 3 cut(s) 222, 488, 524
BstXI CCANNNNNNTGG 1 cut(s) 352
BtsCI GGATG 1 cut(s) 591
BtsIMutI CAGTG 1 cut(s) 903
Cac8I GCNNGC 3 cut(s) 102, 159, 282
CfoI GCGC 3 cut(s) 127, 286, 1126
Cfr13I GGNCC 1 cut(s) 761
CseI GACGC 1 cut(s) 4
CviAII CATG 5 cut(s) 158, 211, 787, 957, 1283
DdeI CTNAG 1 cut(s) 906
DpnI GATC 3 cut(s) 563, 606, 930
DpnII GATC 3 cut(s) 561, 604, 928
DraI TTTAAA 1 cut(s) 1233
Eam1104I CTCTTC 1 cut(s) 261
EarI CTCTTC 1 cut(s) 261
Eco130I CCWWGG 1 cut(s) 345
Eco32I GATATC 1 cut(s) 249
Eco47I GGWCC 1 cut(s) 761
Eco57I CTGAAG 1 cut(s) 717
Eco88I CYCGRG 1 cut(s) 565
EcoO109I RGGNCCY 1 cut(s) 761
EcoRV GATATC 1 cut(s) 249
EcoT14I CCWWGG 1 cut(s) 345
ErhI CCWWGG 1 cut(s) 345
FaeI CATG 5 cut(s) 161, 214, 790, 960, 1286
FalI AAGNNNNNCTT 4 cut(s) 474, 506, 516, 548
FaqI GGGAC 1 cut(s) 938
FatI CATG 5 cut(s) 157, 210, 786, 956, 1282
FauNDI CATATG 1 cut(s) 655
FbaI TGATCA 1 cut(s) 928
Fnu4HI GCNGC 1 cut(s) 155
FokI GGATG 1 cut(s) 598
Fsp4HI GCNGC 1 cut(s) 155
FspBI CTAG 1 cut(s) 881
GlaI GCGC 3 cut(s) 126, 285, 1125
GluI GCNGC 1 cut(s) 155
HaeII RGCGCY 1 cut(s) 287
HgaI GACGC 1 cut(s) 4
HhaI GCGC 3 cut(s) 127, 286, 1126
Hin1I GRCGYC 1 cut(s) 15
Hin1II CATG 5 cut(s) 161, 214, 790, 960, 1286
Hin6I GCGC 3 cut(s) 125, 284, 1124
HinP1I GCGC 3 cut(s) 125, 284, 1124
HindIII AAGCTT 3 cut(s) 92, 196, 1227
HinfI GANTC 3 cut(s) 70, 578, 877
HphI GGTGA 2 cut(s) 35, 92
Hpy166II GTNNAC 2 cut(s) 842, 1163
Hpy188I TCNGA 4 cut(s) 75, 933, 1086, 1224
Hpy188III TCNNGA 7 cut(s) 46, 337, 559, 602, 684, 1270, 1312
Hpy8I GTNNAC 2 cut(s) 842, 1163
HpyAV CCTTC 4 cut(s) 417, 502, 913, 1204
HpyCH4III ACNGT 3 cut(s) 136, 470, 1320
HpyCH4IV ACGT 1 cut(s) 662
HpyCH4V TGCA 8 cut(s) 100, 157, 161, 168, 280, 366, 914, 1246
HpyF3I CTNAG 1 cut(s) 906
HpySE526I ACGT 1 cut(s) 662
Hsp92I GRCGYC 1 cut(s) 15
Hsp92II CATG 5 cut(s) 161, 214, 790, 960, 1286
HspAI GCGC 3 cut(s) 125, 284, 1124
Ksp22I TGATCA 1 cut(s) 928
Kzo9I GATC 3 cut(s) 561, 604, 928
LmnI GCTCC 2 cut(s) 867, 1137
Lsp1109I GCAGC 1 cut(s) 141
LweI GCATC 1 cut(s) 642
MaeI CTAG 1 cut(s) 881
MaeII ACGT 1 cut(s) 662
MaeIII GTNAC 4 cut(s) 229, 334, 464, 1052
MalI GATC 3 cut(s) 563, 606, 930
MboI GATC 3 cut(s) 561, 604, 928
MboII GAAGA 7 cut(s) 227, 278, 488, 524, 702, 710, 1004
MfeI CAATTG 2 cut(s) 637, 1247
MhlI GDGCHC 1 cut(s) 1201
MluCI AATT 6 cut(s) 271, 357, 637, 643, 711, 1247
MlyI GAGTC 1 cut(s) 587
MmeI TCCRAC 2 cut(s) 333, 570
MnlI CCTC 8 cut(s) 108, 379, 665, 680, 886, 889, 1145, 1148
MunI CAATTG 2 cut(s) 637, 1247
Mva1269I GAATGC 1 cut(s) 916
NdeI CATATG 1 cut(s) 655
NdeII GATC 3 cut(s) 561, 604, 928
NlaIII CATG 5 cut(s) 161, 214, 790, 960, 1286
NlaIV GGNNCC 1 cut(s) 901
NmuCI GTSAC 2 cut(s) 229, 334
NspI RCATGY 2 cut(s) 161, 790
PaeI GCATGC 1 cut(s) 161
PctI GAATGC 1 cut(s) 916
PfeI GAWTC 2 cut(s) 70, 877
PkrI GCNGC 1 cut(s) 156
PleI GAGTC 1 cut(s) 586
PpsI GAGTC 1 cut(s) 586
PpuMI RGGWCCY 1 cut(s) 761
PsiI TTATAA 1 cut(s) 144
Psp5II RGGWCCY 1 cut(s) 761
PspN4I GGNNCC 1 cut(s) 901
PspPI GGNCC 1 cut(s) 761
PspPPI RGGWCCY 1 cut(s) 761
SatI GCNGC 1 cut(s) 155
Sau3AI GATC 3 cut(s) 561, 604, 928
Sau96I GGNCC 1 cut(s) 761
SchI GAGTC 1 cut(s) 587
SduI GDGCHC 1 cut(s) 1201
SfaNI GCATC 1 cut(s) 642
SinI GGWCC 1 cut(s) 761
SmlI CTYRAG 1 cut(s) 818
SmoI CTYRAG 1 cut(s) 818
SphI GCATGC 1 cut(s) 161
Sse9I AATT 6 cut(s) 271, 357, 637, 643, 711, 1247
SspI AATATT 1 cut(s) 241
SspMI CTAG 1 cut(s) 881
StyI CCWWGG 1 cut(s) 345
TaaI ACNGT 3 cut(s) 136, 470, 1320
TaiI ACGT 1 cut(s) 665
TaqI TCGA 5 cut(s) 113, 754, 1070, 1137, 1311
TasI AATT 6 cut(s) 271, 357, 637, 643, 711, 1247
TfiI GAWTC 2 cut(s) 70, 877
TscAI CASTG 1 cut(s) 910
TseFI GTSAC 2 cut(s) 229, 334
TseI GCWGC 1 cut(s) 154
Tsp45I GTSAC 2 cut(s) 229, 334
TspDTI ATGAA 7 cut(s) 65, 218, 635, 740, 744, 1046, 1056
TspRI CASTG 1 cut(s) 910
VpaK11BI GGWCC 1 cut(s) 761
XapI RAATTY 4 cut(s) 271, 357, 643, 711
XceI RCATGY 2 cut(s) 161, 790
XspI CTAG 1 cut(s) 881
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.