Rh3DG021100

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3D
OG0009511
Physical Location & Seq
Reverse (-)
1348054 .. 1350253
2200 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3DG021100.1

Sequence Viewer

Length: 1764 bp
ATGGCAATAGTCTCCACTGAGTTATTGCCTCATAGCTTCCACACTACCTCCCAACTCAAACCCACTTCCCATTCCCACCACCCCACTACTTTGAGTTACAGACCTTCTTCTTCCTCTTCATTCTCAAATGGCAGAAACAACACCTCCAGAAACCTAACAAGGGTGTCTGTCTCTGCTGAACCAAAACCAACACACTTGCAAAACCATGATTACAAAGAGACCCACTTGATCAAAGTCCTCAACAGGTCTTGCAAAGCAGGCCAGTACAATGAAGCCTTCTACTTTCTTGAGCTCATGGTCAACAAGGGCTACAAGCCTGATGTGATTCTCTGCACCAAGCTCATCAAAGGCTTCTTCAACTCGAGAAACATCGAAAAGGCCATTCGGGTTATGCAAATATTGGAACAGTATGGAGAGCCTGATTTGTTTTCATACAATGCTTTGATCAGTGGGTTTTGTAAGGCCAATAGGATTGAATCAGCAAACAAAGTTCTTGATAGAATGAAGAGTCAGGGGTTCAAGCCTGATGTTGTTACATATAATATAATGATTGGGAGTCTCTGTAGTAGAGGGAAGCTTGGGTTAGCTAGGAAGGTTATGGATCGTTTAGTGAAAGACAATTGCAAGCCTACTGTGATTACATATACAATATTGATAGAAGCTACTATTCTTGATGGTGGGATTGATGAAGCTATGAAGCTTTTGGATGAGATGTTGTCAAGAGGGCTTAGACCTGATATGTATACTTACAATGCCATTGTTAGGGGAATGTGCAGGGAAGGAATGCTGGATAGAGCTTTTGAGTTTGTTAGGAGCTTCGATGCTAAAGGCTGTGCGCCGAATGTGATCTCATACAACATATTGTTGCGTGCGCTTTTGAACCGTGGGAAATGGGAGGAAGGTGAGAATCTAGTGAGCAATATGTGTGCAAGAGGTTGTGAGCCTAATGTGGTGACTTATAGCATCTTGATTAGCACGCTGTGCCGCGATGGGCAAGTTGAGGATGCAGTGAATGTGTTGAAGATTATGAAGGAAAAGGGGTTAACTCCGGATGCATATAGTTATGATCCATTGATTTCAACTTTCTGCAAAGAAGGGAGGTTAGATTTAGCAATAGAGTTTTTGGATTGTATGATATCTGATGGTTGCTTGCCAGATATTGTGAACTACAATACAATCTTGGCTGCTTTGTGCAAGAATGGGAGTGCTGATCAGGCTTTGGAAATCTTCGAGAAATTGGGTGAAGTCGGTTGTCCTCCAAATGTGAGTTCCTACAACACAATGTTCAGTGCATTGTGGAACTGTGGAGACAGAGTAAGAGCTTTGGGAATGGTATCAGACATGGTAAGCAAAGGAATTGAGCCTGATGAGATCACATACAATTCACTTATATCGTGTCTGTGCAGAGATGGGATGGTAAATGAGGCAATAGGGTTGTTGGTAGACATGGAAACTGGTGGTTTTCAGCCTACAGTTATCACTTACAATATTGTTCTTCTTGGGTTGAGCAAGGCTCGGAGGATTATCGATGCCATTGAAGTGTTCACAGCAATGGTTGAAAAGGGTTGCCGGCCTAACGAAACTACTTACATTTTGCTGATTGAAGGAATTGGATTTGCAGGATGGCGAGCTGAAGCTATGGAGCTTGCAAAATCTGTTTATAGTTTAAGGGCTATTTCGGAAGATTCTTTCAAACGCTTGAACAGGACCTTTCCCATGCTTGATGTTTACAAAGAGCTTACTCTGTCTGAGATTAAGAACTAG

Protein Analysis

587

Amino Acids

65.59

Weight (kDa)

6.73

Isoelectric Point (pI)

34.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_long PF17177 65 - 217 3.6e-06 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 97 - 152 2.2e-07 Pentatricopeptide repeat domain
PPR_3 PF13812 139 - 186 1.8e-09 Pentatricopeptide repeat domain
PPR_1 PF12854 139 - 169 6.2e-11 PPR repeat
PPR_2 PF13041 140 - 188 8.4e-19 PPR repeat family
PPR PF01535 143 - 173 6.2e-08 PPR repeat
PPR_3 PF13812 163 - 221 5.3e-12 Pentatricopeptide repeat domain
PPR_1 PF12854 172 - 202 3.9e-09 PPR repeat
PPR_2 PF13041 175 - 221 1.7e-14 PPR repeat family
TPR_24 PF23276 191 - 299 4.4e-07 Fungal tetratrico peptide repeats
PPR_long PF17177 196 - 297 3.2e-06 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 207 - 238 2.1e-07 PPR repeat
PPR_2 PF13041 226 - 259 1.7e-09 PPR repeat family
PPR_3 PF13812 233 - 292 4e-12 Pentatricopeptide repeat domain
PPR_1 PF12854 241 - 271 7.7e-11 PPR repeat
PPR_2 PF13041 249 - 293 9.4e-11 PPR repeat family
PPR_2 PF13041 280 - 329 5.9e-17 PPR repeat family
PPR_long PF17177 303 - 419 6.5e-12 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 304 - 364 8.2e-10 Pentatricopeptide repeat domain
PPR_1 PF12854 311 - 344 2e-13 PPR repeat
PPR PF01535 318 - 348 6.9e-07 PPR repeat
PPR_2 PF13041 322 - 364 1.6e-10 PPR repeat family
PPR_1 PF12854 346 - 378 9.4e-10 PPR repeat
TPR_24 PF23276 352 - 444 2.1e-08 Fungal tetratrico peptide repeats
PPR_3 PF13812 378 - 431 4e-10 Pentatricopeptide repeat domain
PPR_1 PF12854 381 - 412 1.7e-08 PPR repeat
PPR_2 PF13041 385 - 432 1.6e-13 PPR repeat family
PPR_2 PF13041 420 - 469 1.5e-13 PPR repeat family
PPR_long PF17177 441 - 535 1.2e-07 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 445 - 499 2e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 451 - 484 2.3e-13 PPR repeat
PPR_2 PF13041 455 - 504 1.8e-14 PPR repeat family
PPR PF01535 458 - 487 2e-07 PPR repeat
PPR_3 PF13812 479 - 538 1.4e-07 Pentatricopeptide repeat domain
PPR_2 PF13041 490 - 536 2e-11 PPR repeat family
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)
AccI GTMKAC 2 cut(s) 743, 1443
AccII CGCG 1 cut(s) 987
AccIII TCCGGA 1 cut(s) 1048
AciI CCGC 1 cut(s) 985
AclWI GGATC 2 cut(s) 609, 1061
AcuI CTGAAG 1 cut(s) 1653
AdeI CACNNNGTG 1 cut(s) 981
AfaI GTAC 1 cut(s) 266
AfiI CCNNNNNNNGG 2 cut(s) 160, 762
AjuI GAANNNNNNNTTGG 2 cut(s) 1252, 1284
Alw21I GWGCWC 1 cut(s) 294
Alw26I GTCTC 5 cut(s) 16, 175, 212, 563, 1302
AlwI GGATC 2 cut(s) 609, 1061
Ama87I CYCGRG 1 cut(s) 361
Aor13HI TCCGGA 1 cut(s) 1048
AoxI GGCC 4 cut(s) 259, 378, 462, 1571
ApeKI GCWGC 1 cut(s) 1184
AspLEI GCGC 2 cut(s) 838, 874
AspS9I GGNCC 1 cut(s) 1707
AsuHPI GGTGA 3 cut(s) 914, 964, 1253
AvaI CYCGRG 1 cut(s) 361
AvaII GGWCC 1 cut(s) 1707
BanII GRGCYC 1 cut(s) 294
Bbv12I GWGCWC 1 cut(s) 294
BbvI GCAGC 1 cut(s) 1171
BccI CCATC 6 cut(s) 668, 983, 1136, 1403, 1408, 1617
BclI TGATCA 3 cut(s) 228, 444, 1210
BcoDI GTCTC 5 cut(s) 16, 175, 212, 563, 1302
BfaI CTAG 3 cut(s) 588, 911, 1762
BfmI CTRYAG 2 cut(s) 562, 1470
BisI GCNGC 2 cut(s) 985, 1185
BlsI GCNGC 2 cut(s) 986, 1186
Bme18I GGWCC 1 cut(s) 1707
BmeT110I CYCGRG 1 cut(s) 361
BmgT120I GGNCC 1 cut(s) 1707
BmsI GCATC 5 cut(s) 811, 972, 994, 1042, 1519
BplI GAGNNNNNCTC 2 cut(s) 1498, 1530
BpmI CTGGAG 1 cut(s) 130
BpuEI CTTGAG 1 cut(s) 308
Bsa29I ATCGAT 1 cut(s) 1527
BsaI GGTCTC 1 cut(s) 212
BsaJI CCNNGG 1 cut(s) 883
BsaWI WCCGGW 1 cut(s) 1048
BsaXI ACNNNNNCTCC 8 cut(s) 32, 62, 128, 158, 547, 577, 1299, 1329
Bsc4I CCNNNNNNNGG 2 cut(s) 160, 762
Bse118I RCCGGY 1 cut(s) 1569
Bse1I ACTGG 2 cut(s) 262, 1459
Bse3DI GCAATG 1 cut(s) 1557
BseAI TCCGGA 1 cut(s) 1048
BseCI ATCGAT 1 cut(s) 1527
BseDI CCNNGG 1 cut(s) 883
BseGI GGATG 5 cut(s) 712, 1009, 1057, 1419, 1628
BseLI CCNNNNNNNGG 2 cut(s) 160, 762
BseMI GCAATG 1 cut(s) 1557
BseMII CTCAG 2 cut(s) 9, 1740
BseNI ACTGG 2 cut(s) 262, 1459
BseXI GCAGC 1 cut(s) 1171
BsgI GTGCAG 3 cut(s) 316, 793, 1423
Bsh1236I CGCG 1 cut(s) 987
BshFI GGCC 4 cut(s) 261, 380, 464, 1573
BshVI ATCGAT 1 cut(s) 1527
BsiHKAI GWGCWC 1 cut(s) 294
BsiHKCI CYCGRG 1 cut(s) 361
BsiSI CCGG 2 cut(s) 1049, 1570
BslI CCNNNNNNNGG 2 cut(s) 160, 762
BsmAI GTCTC 5 cut(s) 16, 175, 212, 563, 1302
BsmI GAATGC 1 cut(s) 789
BsnI GGCC 4 cut(s) 261, 380, 464, 1573
Bso31I GGTCTC 1 cut(s) 212
BsoBI CYCGRG 1 cut(s) 361
Bsp1286I GDGCHC 1 cut(s) 294
Bsp13I TCCGGA 1 cut(s) 1048
Bsp143I GATC 7 cut(s) 228, 444, 601, 846, 1066, 1210, 1371
BspACI CCGC 1 cut(s) 985
BspANI GGCC 4 cut(s) 261, 380, 464, 1573
BspCNI CTCAG 2 cut(s) 10, 1741
BspDI ATCGAT 1 cut(s) 1527
BspEI TCCGGA 1 cut(s) 1048
BspFNI CGCG 1 cut(s) 987
BspPI GGATC 2 cut(s) 609, 1061
BspTNI GGTCTC 1 cut(s) 212
BsrDI GCAATG 1 cut(s) 1557
BsrFI RCCGGY 1 cut(s) 1569
BsrI ACTGG 2 cut(s) 262, 1459
BssAI RCCGGY 1 cut(s) 1569
BssECI CCNNGG 1 cut(s) 883
BssMI GATC 7 cut(s) 228, 444, 601, 846, 1066, 1210, 1371
BssNAI GTATAC 1 cut(s) 744
Bst1107I GTATAC 1 cut(s) 744
Bst4CI ACNGT 5 cut(s) 408, 634, 884, 1304, 1474
Bst6I CTCTTC 2 cut(s) 121, 500
BstAPI GCANNNNNTGC 1 cut(s) 981
BstC8I GCNNGC 8 cut(s) 259, 626, 870, 977, 1151, 1571, 1629, 1647
BstDEI CTNAG 3 cut(s) 18, 728, 1749
BstDSI CCRYGG 1 cut(s) 883
BstF5I GGATG 5 cut(s) 712, 1009, 1057, 1419, 1628
BstFNI CGCG 1 cut(s) 987
BstHHI GCGC 2 cut(s) 838, 874
BstKTI GATC 7 cut(s) 231, 447, 604, 849, 1069, 1213, 1374
BstMAI GTCTC 5 cut(s) 16, 175, 212, 563, 1302
BstMBI GATC 7 cut(s) 228, 444, 601, 846, 1066, 1210, 1371
BstMWI GCNNNNNNNGC 3 cut(s) 258, 981, 1214
BstSFI CTRYAG 2 cut(s) 562, 1470
BstUI CGCG 1 cut(s) 987
BstV1I GCAGC 1 cut(s) 1171
BstZ17I GTATAC 1 cut(s) 744
Bsu15I ATCGAT 1 cut(s) 1527
BsuRI GGCC 4 cut(s) 261, 380, 464, 1573
BsuTUI ATCGAT 1 cut(s) 1527
BtgI CCRYGG 1 cut(s) 883
BtgZI GCGATG 1 cut(s) 1002
BtsCI GGATG 5 cut(s) 712, 1009, 1057, 1419, 1628
BtsI GCAGTG 1 cut(s) 1014
BtsIMutI CAGTG 4 cut(s) 15, 454, 1014, 1294
Cac8I GCNNGC 8 cut(s) 259, 626, 870, 977, 1151, 1571, 1629, 1647
CfoI GCGC 2 cut(s) 838, 874
Cfr10I RCCGGY 1 cut(s) 1569
Cfr13I GGNCC 1 cut(s) 1707
ClaI ATCGAT 1 cut(s) 1527
Csp6I GTAC 1 cut(s) 265
CviAII CATG 5 cut(s) 206, 295, 1342, 1447, 1717
CviQI GTAC 1 cut(s) 265
DdeI CTNAG 3 cut(s) 18, 728, 1749
DpnI GATC 7 cut(s) 230, 446, 603, 848, 1068, 1212, 1373
DpnII GATC 7 cut(s) 228, 444, 601, 846, 1066, 1210, 1371
DraIII CACNNNGTG 1 cut(s) 981
Eam1104I CTCTTC 2 cut(s) 121, 500
EarI CTCTTC 2 cut(s) 121, 500
Ecl136II GAGCTC 1 cut(s) 292
Eco24I GRGCYC 1 cut(s) 294
Eco31I GGTCTC 1 cut(s) 212
Eco32I GATATC 1 cut(s) 1137
Eco47I GGWCC 1 cut(s) 1707
Eco53kI GAGCTC 1 cut(s) 292
Eco57I CTGAAG 1 cut(s) 1653
Eco88I CYCGRG 1 cut(s) 361
EcoICRI GAGCTC 1 cut(s) 292
EcoO109I RGGNCCY 1 cut(s) 1707
EcoRV GATATC 1 cut(s) 1137
EcoT22I ATGCAT 1 cut(s) 1057
EcoT38I GRGCYC 1 cut(s) 294
FaeI CATG 5 cut(s) 209, 298, 1345, 1450, 1720
FatI CATG 5 cut(s) 205, 294, 1341, 1446, 1716
FbaI TGATCA 3 cut(s) 228, 444, 1210
FblI GTMKAC 2 cut(s) 743, 1443
Fnu4HI GCNGC 2 cut(s) 985, 1185
FokI GGATG 5 cut(s) 719, 1016, 1064, 1426, 1635
FriOI GRGCYC 1 cut(s) 294
Fsp4HI GCNGC 2 cut(s) 985, 1185
FspBI CTAG 3 cut(s) 588, 911, 1762
GlaI GCGC 2 cut(s) 837, 873
GluI GCNGC 2 cut(s) 985, 1185
GsuI CTGGAG 1 cut(s) 130
HaeIII GGCC 4 cut(s) 261, 380, 464, 1573
HapII CCGG 2 cut(s) 1049, 1570
HhaI GCGC 2 cut(s) 838, 874
Hin1II CATG 5 cut(s) 209, 298, 1345, 1450, 1720
Hin6I GCGC 2 cut(s) 836, 872
HinP1I GCGC 2 cut(s) 836, 872
HincII GTYRAC 2 cut(s) 301, 1044
HindII GTYRAC 2 cut(s) 301, 1044
HindIII AAGCTT 2 cut(s) 575, 698
HinfI GANTC 6 cut(s) 325, 476, 508, 556, 907, 1685
HpaI GTTAAC 1 cut(s) 1044
HpaII CCGG 2 cut(s) 1049, 1570
HphI GGTGA 3 cut(s) 914, 964, 1253
Hpy166II GTNNAC 7 cut(s) 301, 744, 1044, 1165, 1444, 1545, 1729
Hpy188I TCNGA 5 cut(s) 1141, 1339, 1518, 1681, 1750
Hpy188III TCNNGA 9 cut(s) 147, 287, 363, 494, 671, 720, 967, 1049, 1231
Hpy8I GTNNAC 7 cut(s) 301, 744, 1044, 1165, 1444, 1545, 1729
HpyAV CCTTC 8 cut(s) 114, 286, 586, 773, 893, 1024, 1088, 1598
HpyCH4III ACNGT 5 cut(s) 408, 634, 884, 1304, 1474
HpyF10VI GCNNNNNNNGC 3 cut(s) 258, 981, 1214
HpyF3I CTNAG 3 cut(s) 18, 728, 1749
Hsp92II CATG 5 cut(s) 209, 298, 1345, 1450, 1720
HspAI GCGC 2 cut(s) 836, 872
Kpn2I TCCGGA 1 cut(s) 1048
KroI GCCGGC 1 cut(s) 1569
KroNI GCCGGC 1 cut(s) 1571
Ksp22I TGATCA 3 cut(s) 228, 444, 1210
KspAI GTTAAC 1 cut(s) 1044
Kzo9I GATC 7 cut(s) 228, 444, 601, 846, 1066, 1210, 1371
LmnI GCTCC 2 cut(s) 813, 1642
Lsp1109I GCAGC 1 cut(s) 1171
LweI GCATC 5 cut(s) 811, 972, 994, 1042, 1519
MaeI CTAG 3 cut(s) 588, 911, 1762
MaeIII GTNAC 3 cut(s) 95, 532, 952
MalI GATC 7 cut(s) 230, 446, 603, 848, 1068, 1212, 1373
MboI GATC 7 cut(s) 228, 444, 601, 846, 1066, 1210, 1371
MboII GAAGA 9 cut(s) 99, 102, 108, 346, 517, 1033, 1219, 1487, 1694
MfeI CAATTG 1 cut(s) 619
MhlI GDGCHC 1 cut(s) 294
MluCI AATT 5 cut(s) 619, 1235, 1356, 1381, 1608
MlyI GAGTC 2 cut(s) 517, 565
Mph1103I ATGCAT 1 cut(s) 1057
MroI TCCGGA 1 cut(s) 1048
MroNI GCCGGC 1 cut(s) 1569
MseI TTAA 3 cut(s) 1043, 1667, 1755
MslI CAYNNNNRTG 2 cut(s) 1538, 1550
MspI CCGG 2 cut(s) 1049, 1570
MunI CAATTG 1 cut(s) 619
Mva1269I GAATGC 1 cut(s) 789
MvnI CGCG 1 cut(s) 987
MwoI GCNNNNNNNGC 3 cut(s) 258, 981, 1214
NaeI GCCGGC 1 cut(s) 1571
NdeII GATC 7 cut(s) 228, 444, 601, 846, 1066, 1210, 1371
NgoMIV GCCGGC 1 cut(s) 1569
NlaIII CATG 5 cut(s) 209, 298, 1345, 1450, 1720
NmuCI GTSAC 1 cut(s) 952
NsiI ATGCAT 1 cut(s) 1057
PaeR7I CTCGAG 1 cut(s) 361
PctI GAATGC 1 cut(s) 789
PdiI GCCGGC 1 cut(s) 1571
PfeI GAWTC 4 cut(s) 325, 476, 907, 1685
PkrI GCNGC 2 cut(s) 986, 1186
PleI GAGTC 2 cut(s) 516, 564
PpsI GAGTC 2 cut(s) 516, 564
PpuMI RGGWCCY 1 cut(s) 1707
Psp124BI GAGCTC 1 cut(s) 294
Psp5II RGGWCCY 1 cut(s) 1707
PspPI GGNCC 1 cut(s) 1707
PspPPI RGGWCCY 1 cut(s) 1707
RsaI GTAC 1 cut(s) 266
RsaNI GTAC 1 cut(s) 265
RseI CAYNNNNRTG 2 cut(s) 1538, 1550
SacI GAGCTC 1 cut(s) 294
SaqAI TTAA 3 cut(s) 1043, 1667, 1755
SatI GCNGC 2 cut(s) 985, 1185
Sau3AI GATC 7 cut(s) 228, 444, 601, 846, 1066, 1210, 1371
Sau96I GGNCC 1 cut(s) 1707
SchI GAGTC 2 cut(s) 517, 565
SduI GDGCHC 1 cut(s) 294
SfaNI GCATC 5 cut(s) 811, 972, 994, 1042, 1519
SfcI CTRYAG 2 cut(s) 562, 1470
Sfr274I CTCGAG 1 cut(s) 361
SinI GGWCC 1 cut(s) 1707
SlaI CTCGAG 1 cut(s) 361
SmiMI CAYNNNNRTG 2 cut(s) 1538, 1550
SmlI CTYRAG 2 cut(s) 287, 361
SmoI CTYRAG 2 cut(s) 287, 361
Sse9I AATT 5 cut(s) 619, 1235, 1356, 1381, 1608
SsiI CCGC 1 cut(s) 985
SspI AATATT 3 cut(s) 399, 651, 1489
SspMI CTAG 3 cut(s) 588, 911, 1762
SstI GAGCTC 1 cut(s) 294
TaaI ACNGT 5 cut(s) 408, 634, 884, 1304, 1474
TaqI TCGA 5 cut(s) 362, 372, 819, 1230, 1527
TasI AATT 5 cut(s) 619, 1235, 1356, 1381, 1608
TatI WGTACW 1 cut(s) 264
TauI GCSGC 1 cut(s) 987
TfiI GAWTC 4 cut(s) 325, 476, 907, 1685
Tru1I TTAA 3 cut(s) 1043, 1667, 1755
Tru9I TTAA 3 cut(s) 1043, 1667, 1755
TscAI CASTG 4 cut(s) 22, 454, 1014, 1294
TseFI GTSAC 1 cut(s) 952
TseI GCWGC 1 cut(s) 1184
Tsp45I GTSAC 1 cut(s) 952
TspDTI ATGAA 7 cut(s) 108, 285, 420, 518, 702, 710, 1043
TspRI CASTG 4 cut(s) 22, 454, 1014, 1294
VpaK11BI GGWCC 1 cut(s) 1707
XhoI CTCGAG 1 cut(s) 361
XmiI GTMKAC 2 cut(s) 743, 1443
XspI CTAG 3 cut(s) 588, 911, 1762
Zsp2I ATGCAT 1 cut(s) 1057
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.