RLG00000030068

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr6
OG0004806
Physical Location & Seq
Reverse (-)
54445451 .. 54449729
4279 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000030068

Sequence Viewer

Length: 1914 bp
ATGCTAATCTCCAATCCCTCAAAGCTTTCTCCAATCTCTTCTCTCACCCATCTTCTTCGAACTCTCTCATCCATTGCTGTTCCATCTCACAACCACATATCACATCTTCTACTCGAACAAAAATCCGCCACCCAGGTCCTCGACACCTTCCAATGGGCTTCCAAACTCCCCAGCTTCACCCACTCCCCGTCCACTTACCGAGCCCTCATCCACAAGCTATGCACCTTCCACCGCTTCGACATTGCCCACCAAGTGCTCGACGAAATGCCCCACTCAATCGGCCTACCCCCAGATGACCACATTTTCGTCACACTCATTCATGGCCTCGGCCGAGCCCATTTGGTGAAGCAAGTGATCAAGGTGCTTGACTTGGTTCGCAAGTATAACCAGAAACCTTCTCTCAAGATATTCAATTCGATACTTGATGTTCTTGTGAAGGAGGATATAGATATAGCTAGGGAGTTTTATAGGAAGAAGATGATGGCAAGTGGCGTCAAGGGTGATGATTATACTTTTGGTATCTTGATGAAAGGTCTTTGTTTGACGAATCGGATTGGTGATGGTTTTAAGCTTTTGCAGGCTATTAAGTTGAGGGGAGTTGCGCCGAATACTGTGGTTTATAACACATTGCTGCATGCACTTTGCAGGAATGGGAAAGTTGGGAGAGCCAGAAGCTTGATGAATGAGATGGAAGACCCCAATGGTGTGACTTTTAATATTTTGATATCTGGTTATTGCGGAGAAGAGAATTTAGTGCAAGCGCTTGTTATGTTGGACAAGTGCTTTGGTCTGGGGTATGTGCCTGATGTTGTCACGACAACCAAGGTGTTGGAAATTCTGTGCAATGATGGTCGCGTAACGGAGGCTGTCAAGGTTATAGAGAGAGTGGAGAGCAATGGAGGGTTGGTTGATGTTGTGGCATATAATACCTTGATTAAGGGTTACTGTCGGTTAGGGAAAGCAAAACTTGGTCTTCGCATTTTGAAGGAGATGGAGAGAAAAGGGTGTCTTCCAAATGTTGATACCTACAATGTCTTGATCTCGGGTTTTTGTGAGTCTGGGATGTTGGATAAAGCTCTTGATCTGTTTAATGATATGAAAACAGATGGCATCAATTGGAATTTTGCTACATATGATACGTTAATAAGAGGCTTGTGTTCAGGAGGAAGAACTGAAGATGGGTTAAAAATTTTGGATTTGATGAATGAGAGCAAAGATGGTTGTAGGGGTCGAATAGGTCCTTTTAATAGTGTCTTGTATGGCATGTATAAGGAAAAACGTTTGGACGAAGCACTTGAGTTTCTTGCCAATATGGGTAAACTATTTCCCAGAGCTGTTGATAGGAGCTTTAGGATTTTAGGTTTCTGTGAGGAGGGTGCCACTGAGAATGCAAAGAAGGTCTATGATCAGATGATTGTGGAAAGGGCAGTCCCATGTGTTTTGATTTATGACTATCTAATCCATAGATTTTGCCAACAAGGGTGTTTTCGTCAAGCCTTTGAGCTTATGAATGAGATGATTGCTCATTGTTACTTTCCTGTTTCATCGACTTTCAATGTTCTGATTAACGGGTTTTGTGAGCAAGGAAAAGTTGGTAGTGCGCTAAAGCTCCTCGATGAGATGATTGGTAGAGGTTGTTTACCTGATATAGAAAGTTATAGTCATTTGGTAGGTGCTTTTTGCCAGAAGGGGGATTTTCAGAAAGCTTTAAAACTCGTTTTGCAAATGGCAGGAAAGGGTATCACTCCTGATTATTTCACATGGAACTCGTTGCTTCTTTGTTCAAGTCGAGAGACTGTATGTACTATTGAGAGGTCACTCACTATGTTCGGATTCCTCCACTTTGCTGAGTCCTCATTGCTAAACGGACTGATTATGGCAGCCAAGGTACGGCTTTTGGATTGCTTCAACTGA

Protein Analysis

638

Amino Acids

71.29

Weight (kDa)

8.33

Isoelectric Point (pI)

28.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 190 - 246 1.3e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 198 - 231 2.3e-11 PPR repeat
PPR_2 PF13041 202 - 246 8e-14 PPR repeat family
PPR PF01535 205 - 231 2.8e-06 PPR repeat
PPR_1 PF12854 233 - 260 9e-06 PPR repeat
TPR_24 PF23276 237 - 330 5.8e-07 Fungal tetratrico peptide repeats
PPR_1 PF12854 301 - 332 2.6e-07 PPR repeat
PPR_3 PF13812 303 - 349 1.2e-12 Pentatricopeptide repeat domain
PPR_2 PF13041 304 - 351 1e-18 PPR repeat family
PPR PF01535 306 - 336 2.1e-08 PPR repeat
PPR_1 PF12854 334 - 367 1.1e-13 PPR repeat
PPR_2 PF13041 338 - 386 4.1e-17 PPR repeat family
PPR PF01535 342 - 371 5.6e-10 PPR repeat
PPR_long PF17177 462 - 595 3.3e-07 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 511 - 541 1.5e-09 PPR repeat
PPR_2 PF13041 515 - 562 2.2e-13 PPR repeat family
PPR PF01535 516 - 546 6.5e-08 PPR repeat
PPR_3 PF13812 536 - 592 5.3e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 544 - 576 3e-06 PPR repeat
PPR_2 PF13041 548 - 592 5.4e-09 PPR repeat family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 621
AccB1I GGYRCC 1 cut(s) 1376
AccII CGCG 1 cut(s) 855
AciI CCGC 3 cut(s) 126, 232, 738
AclI AACGTT 1 cut(s) 1279
AcoI YGGCCR 1 cut(s) 328
AcsI RAATTY 4 cut(s) 748, 834, 1120, 1188
AcuI CTGAAG 1 cut(s) 1194
AcyI GRCGYC 1 cut(s) 492
AdeI CACNNNGTG 1 cut(s) 253
AfaI GTAC 2 cut(s) 1804, 1890
AfeI AGCGCT 1 cut(s) 762
AfiI CCNNNNNNNGG 3 cut(s) 153, 1690, 1890
AgsI TTSAA 5 cut(s) 412, 985, 1555, 1785, 1909
AjnI CCWGG 1 cut(s) 132
Alw21I GWGCWC 1 cut(s) 258
Alw26I GTCTC 1 cut(s) 1787
Ama87I CYCGRG 1 cut(s) 1042
Aor51HI AGCGCT 1 cut(s) 762
AoxI GGCC 3 cut(s) 280, 322, 328
ApeKI GCWGC 2 cut(s) 631, 1880
ApoI RAATTY 4 cut(s) 748, 834, 1120, 1188
ArsI GACNNNNNNTTYG 4 cut(s) 287, 319, 767, 799
AspLEI GCGC 3 cut(s) 604, 763, 1603
AspS9I GGNCC 2 cut(s) 136, 1238
AsuHPI GGTGA 5 cut(s) 37, 169, 355, 512, 569
AsuII TTCGAA 1 cut(s) 58
AvaI CYCGRG 1 cut(s) 1042
AvaII GGWCC 2 cut(s) 136, 1238
BanI GGYRCC 1 cut(s) 1376
BanII GRGCYC 2 cut(s) 205, 337
BbsI GAAGAC 3 cut(s) 699, 965, 1001
Bbv12I GWGCWC 1 cut(s) 258
BbvI GCAGC 2 cut(s) 618, 1892
BceAI ACGGC 1 cut(s) 1907
BciT130I CCWGG 1 cut(s) 134
BclI TGATCA 2 cut(s) 354, 1405
BcoDI GTCTC 1 cut(s) 1787
BfaI CTAG 1 cut(s) 456
BfoI RGCGCY 1 cut(s) 764
BisI GCNGC 2 cut(s) 632, 1881
BlsI GCNGC 2 cut(s) 633, 1882
Bme1390I CCNGG 1 cut(s) 134
Bme18I GGWCC 2 cut(s) 136, 1238
BmeT110I CYCGRG 1 cut(s) 1042
BmgT120I GGNCC 2 cut(s) 136, 1238
BmiI GGNNCC 1 cut(s) 1378
BmrFI CCNGG 1 cut(s) 134
BmsI GCATC 1 cut(s) 1119
BpiI GAAGAC 3 cut(s) 699, 965, 1001
Bpu14I TTCGAA 1 cut(s) 58
BpuEI CTTGAG 2 cut(s) 386, 1316
BsaHI GRCGYC 1 cut(s) 492
BsaJI CCNNGG 4 cut(s) 132, 325, 822, 1884
BsaXI ACNNNNNCTCC 2 cut(s) 891, 921
Bsc4I CCNNNNNNNGG 3 cut(s) 153, 1690, 1890
Bse3DI GCAATG 6 cut(s) 72, 240, 626, 850, 901, 1856
BseBI CCWGG 1 cut(s) 134
BseDI CCNNGG 4 cut(s) 132, 325, 822, 1884
BseGI GGATG 3 cut(s) 68, 207, 1068
BseLI CCNNNNNNNGG 3 cut(s) 153, 1690, 1890
BseMI GCAATG 6 cut(s) 72, 240, 626, 850, 901, 1856
BseMII CTCAG 2 cut(s) 1374, 1839
BseRI GAGGAG 2 cut(s) 1385, 1601
BseX3I CGGCCG 1 cut(s) 328
BseXI GCAGC 2 cut(s) 618, 1892
BseYI CCCAGC 1 cut(s) 170
Bsh1236I CGCG 1 cut(s) 855
Bsh1285I CGRYCG 1 cut(s) 331
BshFI GGCC 3 cut(s) 282, 324, 330
BshNI GGYRCC 1 cut(s) 1376
BsiEI CGRYCG 1 cut(s) 331
BsiHKAI GWGCWC 1 cut(s) 258
BsiHKCI CYCGRG 1 cut(s) 1042
BslFI GGGAC 1 cut(s) 1415
BslI CCNNNNNNNGG 3 cut(s) 153, 1690, 1890
BsmAI GTCTC 1 cut(s) 1787
BsmFI GGGAC 1 cut(s) 1415
BsmI GAATGC 1 cut(s) 1393
BsnI GGCC 3 cut(s) 282, 324, 330
BsoBI CYCGRG 1 cut(s) 1042
Bsp119I TTCGAA 1 cut(s) 58
Bsp1286I GDGCHC 3 cut(s) 205, 258, 337
Bsp143I GATC 4 cut(s) 354, 1038, 1081, 1405
BspACI CCGC 3 cut(s) 126, 232, 738
BspANI GGCC 3 cut(s) 282, 324, 330
BspCNI CTCAG 2 cut(s) 1375, 1840
BspFNI CGCG 1 cut(s) 855
BspLI GGNNCC 1 cut(s) 1378
BspT104I TTCGAA 1 cut(s) 58
BspT107I GGYRCC 1 cut(s) 1376
BsrDI GCAATG 6 cut(s) 72, 240, 626, 850, 901, 1856
BssECI CCNNGG 4 cut(s) 132, 325, 822, 1884
BssMI GATC 4 cut(s) 354, 1038, 1081, 1405
BssNI GRCGYC 1 cut(s) 492
BssT1I CCWWGG 2 cut(s) 822, 1884
Bst2UI CCWGG 1 cut(s) 134
Bst4CI ACNGT 3 cut(s) 613, 947, 1798
Bst6I CTCTTC 2 cut(s) 43, 738
BstACI GRCGYC 1 cut(s) 492
BstBI TTCGAA 1 cut(s) 58
BstC8I GCNNGC 3 cut(s) 579, 636, 759
BstDEI CTNAG 2 cut(s) 1383, 1848
BstF5I GGATG 3 cut(s) 68, 207, 1068
BstFNI CGCG 1 cut(s) 855
BstH2I RGCGCY 1 cut(s) 764
BstHHI GCGC 3 cut(s) 604, 763, 1603
BstKTI GATC 4 cut(s) 357, 1041, 1084, 1408
BstMAI GTCTC 1 cut(s) 1787
BstMBI GATC 4 cut(s) 354, 1038, 1081, 1405
BstMCI CGRYCG 1 cut(s) 331
BstNI CCWGG 1 cut(s) 134
BstNSI RCATGY 2 cut(s) 638, 1267
BstSCI CCNGG 1 cut(s) 132
BstUI CGCG 1 cut(s) 855
BstV1I GCAGC 2 cut(s) 618, 1892
BstV2I GAAGAC 3 cut(s) 699, 965, 1001
BstXI CCANNNNNNTGG 1 cut(s) 829
BstZI CGGCCG 1 cut(s) 328
BsuRI GGCC 3 cut(s) 282, 324, 330
BtsCI GGATG 3 cut(s) 68, 207, 1068
BtsIMutI CAGTG 1 cut(s) 1380
Cac8I GCNNGC 3 cut(s) 579, 636, 759
CfoI GCGC 3 cut(s) 604, 763, 1603
Cfr13I GGNCC 2 cut(s) 136, 1238
CseI GACGC 1 cut(s) 481
Csp6I GTAC 2 cut(s) 1803, 1889
CviAII CATG 5 cut(s) 320, 635, 1264, 1434, 1761
CviQI GTAC 2 cut(s) 1803, 1889
DdeI CTNAG 2 cut(s) 1383, 1848
DpnI GATC 4 cut(s) 356, 1040, 1083, 1407
DpnII GATC 4 cut(s) 354, 1038, 1081, 1405
DraI TTTAAA 1 cut(s) 1710
DraIII CACNNNGTG 1 cut(s) 253
EaeI YGGCCR 1 cut(s) 328
EagI CGGCCG 1 cut(s) 328
Eam1104I CTCTTC 2 cut(s) 43, 738
EarI CTCTTC 2 cut(s) 43, 738
EciI GGCGGA 1 cut(s) 115
EclXI CGGCCG 1 cut(s) 328
Eco130I CCWWGG 2 cut(s) 822, 1884
Eco24I GRGCYC 2 cut(s) 205, 337
Eco32I GATATC 1 cut(s) 726
Eco47I GGWCC 2 cut(s) 136, 1238
Eco47III AGCGCT 1 cut(s) 762
Eco52I CGGCCG 1 cut(s) 328
Eco57I CTGAAG 1 cut(s) 1194
Eco88I CYCGRG 1 cut(s) 1042
EcoO109I RGGNCCY 2 cut(s) 136, 1238
EcoRII CCWGG 1 cut(s) 132
EcoRV GATATC 1 cut(s) 726
EcoT14I CCWWGG 2 cut(s) 822, 1884
EcoT38I GRGCYC 2 cut(s) 205, 337
ErhI CCWWGG 2 cut(s) 822, 1884
FaeI CATG 5 cut(s) 323, 638, 1267, 1437, 1764
FalI AAGNNNNNCTT 4 cut(s) 951, 983, 993, 1025
FaqI GGGAC 1 cut(s) 1415
FatI CATG 5 cut(s) 319, 634, 1263, 1433, 1760
FauNDI CATATG 1 cut(s) 1132
FbaI TGATCA 2 cut(s) 354, 1405
Fnu4HI GCNGC 2 cut(s) 632, 1881
FokI GGATG 3 cut(s) 55, 194, 1075
FriOI GRGCYC 2 cut(s) 205, 337
Fsp4HI GCNGC 2 cut(s) 632, 1881
FspBI CTAG 1 cut(s) 456
GlaI GCGC 3 cut(s) 603, 762, 1602
GluI GCNGC 2 cut(s) 632, 1881
GsaI CCCAGC 1 cut(s) 174
HaeII RGCGCY 1 cut(s) 764
HaeIII GGCC 3 cut(s) 282, 324, 330
HgaI GACGC 1 cut(s) 481
HhaI GCGC 3 cut(s) 604, 763, 1603
Hin1I GRCGYC 1 cut(s) 492
Hin1II CATG 5 cut(s) 323, 638, 1267, 1437, 1764
Hin6I GCGC 3 cut(s) 602, 761, 1601
HinP1I GCGC 3 cut(s) 602, 761, 1601
HindIII AAGCTT 4 cut(s) 23, 569, 673, 1704
HinfI GANTC 4 cut(s) 547, 1055, 1833, 1850
HphI GGTGA 5 cut(s) 37, 169, 355, 512, 569
Hpy166II GTNNAC 3 cut(s) 192, 1319, 1640
Hpy188I TCNGA 5 cut(s) 552, 1410, 1563, 1701, 1832
Hpy188III TCNNGA 8 cut(s) 403, 523, 814, 1036, 1079, 1161, 1748, 1790
Hpy8I GTNNAC 3 cut(s) 192, 1319, 1640
Hpy99I CGWCG 1 cut(s) 263
HpyAV CCTTC 7 cut(s) 157, 235, 405, 430, 979, 1390, 1681
HpyCH4III ACNGT 3 cut(s) 613, 947, 1798
HpyCH4IV ACGT 2 cut(s) 1139, 1279
HpyCH4V TGCA 9 cut(s) 222, 577, 634, 638, 645, 757, 843, 1391, 1723
HpyF3I CTNAG 2 cut(s) 1383, 1848
HpySE526I ACGT 2 cut(s) 1139, 1279
Hsp92I GRCGYC 1 cut(s) 492
Hsp92II CATG 5 cut(s) 323, 638, 1267, 1437, 1764
HspAI GCGC 3 cut(s) 602, 761, 1601
Ksp22I TGATCA 2 cut(s) 354, 1405
Kzo9I GATC 4 cut(s) 354, 1038, 1081, 1405
LmnI GCTCC 2 cut(s) 1344, 1614
Lsp1109I GCAGC 2 cut(s) 618, 1892
LweI GCATC 1 cut(s) 1119
MaeI CTAG 1 cut(s) 456
MaeII ACGT 2 cut(s) 1139, 1279
MaeIII GTNAC 7 cut(s) 307, 706, 811, 856, 941, 1529, 1815
MalI GATC 4 cut(s) 356, 1040, 1083, 1407
MboI GATC 4 cut(s) 354, 1038, 1081, 1405
MfeI CAATTG 1 cut(s) 1114
MhlI GDGCHC 3 cut(s) 205, 258, 337
MluCI AATT 6 cut(s) 412, 748, 834, 1114, 1120, 1188
MlyI GAGTC 2 cut(s) 1064, 1859
MmeI TCCRAC 3 cut(s) 753, 810, 1047
MspR9I CCNGG 1 cut(s) 134
MunI CAATTG 1 cut(s) 1114
Mva1269I GAATGC 1 cut(s) 1393
MvaI CCWGG 1 cut(s) 134
MvnI CGCG 1 cut(s) 855
NdeI CATATG 1 cut(s) 1132
NdeII GATC 4 cut(s) 354, 1038, 1081, 1405
NlaIII CATG 5 cut(s) 323, 638, 1267, 1437, 1764
NlaIV GGNNCC 1 cut(s) 1378
NmeAIII GCCGAG 2 cut(s) 306, 356
NmuCI GTSAC 4 cut(s) 307, 706, 811, 1815
NspI RCATGY 2 cut(s) 638, 1267
NspV TTCGAA 1 cut(s) 58
PaeI GCATGC 1 cut(s) 638
PctI GAATGC 1 cut(s) 1393
PfeI GAWTC 2 cut(s) 547, 1833
PkrI GCNGC 2 cut(s) 633, 1882
PleI GAGTC 2 cut(s) 1063, 1858
PpsI GAGTC 2 cut(s) 1063, 1858
PpuMI RGGWCCY 2 cut(s) 136, 1238
PsiI TTATAA 1 cut(s) 621
Psp1406I AACGTT 1 cut(s) 1279
Psp5II RGGWCCY 2 cut(s) 136, 1238
Psp6I CCWGG 1 cut(s) 132
PspFI CCCAGC 1 cut(s) 170
PspGI CCWGG 1 cut(s) 132
PspN4I GGNNCC 1 cut(s) 1378
PspPI GGNCC 2 cut(s) 136, 1238
PspPPI RGGWCCY 2 cut(s) 136, 1238
RsaI GTAC 2 cut(s) 1804, 1890
RsaNI GTAC 2 cut(s) 1803, 1889
SatI GCNGC 2 cut(s) 632, 1881
Sau3AI GATC 4 cut(s) 354, 1038, 1081, 1405
Sau96I GGNCC 2 cut(s) 136, 1238
SchI GAGTC 2 cut(s) 1064, 1859
ScrFI CCNGG 1 cut(s) 134
SduI GDGCHC 3 cut(s) 205, 258, 337
SfaNI GCATC 1 cut(s) 1119
SfuI TTCGAA 1 cut(s) 58
SinI GGWCC 2 cut(s) 136, 1238
SmlI CTYRAG 2 cut(s) 401, 1295
SmoI CTYRAG 2 cut(s) 401, 1295
SphI GCATGC 1 cut(s) 638
Sse9I AATT 6 cut(s) 412, 748, 834, 1114, 1120, 1188
SsiI CCGC 3 cut(s) 126, 232, 738
SspI AATATT 1 cut(s) 718
SspMI CTAG 1 cut(s) 456
StyD4I CCNGG 1 cut(s) 132
StyI CCWWGG 2 cut(s) 822, 1884
TaaI ACNGT 3 cut(s) 613, 947, 1798
TaiI ACGT 2 cut(s) 1142, 1282
TasI AATT 6 cut(s) 412, 748, 834, 1114, 1120, 1188
TatI WGTACW 1 cut(s) 1802
TfiI GAWTC 2 cut(s) 547, 1833
TscAI CASTG 1 cut(s) 1387
TseFI GTSAC 4 cut(s) 307, 706, 811, 1815
TseI GCWGC 2 cut(s) 631, 1880
Tsp45I GTSAC 4 cut(s) 307, 706, 811, 1815
TspDTI ATGAA 7 cut(s) 308, 542, 695, 1112, 1217, 1523, 1533
TspGWI ACGGA 2 cut(s) 875, 1881
TspRI CASTG 1 cut(s) 1387
VpaK11BI GGWCC 2 cut(s) 136, 1238
XapI RAATTY 4 cut(s) 748, 834, 1120, 1188
XceI RCATGY 2 cut(s) 638, 1267
XspI CTAG 1 cut(s) 456
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.