Rh1DG099900

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0009007
Physical Location & Seq
Reverse (-)
18760588 .. 18762093
1506 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG099900.1

Sequence Viewer

Length: 1506 bp
ATGCTCCTTTTGGCAAGACTCAAGAGTGGAACCAATCAATTTCCAACCCCTTTAAAGCTAAAGTTTTCTCTTGTTTCTGCTGCTAAAGTATCCGGCCAATGTGTATTGTCTGTAGAAACGGATGTCGACATTGATAGGATTACTAGAATTATTAACAACCATCCATATCCTGATCAACCACTTCAACCGGCTCTTCTCCAGAATATCCCACCACCTCTTCTTTCTACGAGCTTTGTGGAGAATGTTCTTGGTCACCTTTTCGGTGCCCATTCCAATGGTCTTAAAGCTCTTGAGTTCTTCAATTATTCCCTCCATCGTTCCCAGTTACGTCCAAGTTCAGATGCTTTTGAAAAGACGCTGCACATCCTTACCAGGATGCGCTATTTTGATAAAGCGTGGGAGTTGATGGAGAAAATAAGTAGTATGCATCCTTCGTTGCTTACCCTGAAGTCGATGAGCATCATGCTGTCAAAAATCGCAAAGTTCCAATCCTATGAAGATGTCCTTGTAGCATTTGAAAAGATGGAGACTGATATTTTTGTTGGGAGGAAGTTTGGTACTGATGAGTTTAATGTACTTCTTAGAGCATTTTGCACACAAAGACAAATGAAGGAGGCACGCTCAGTTTTCATAAAGATGCATTCTCGGTTTTCACCCAACACCAAGACCATGAATATCTTGCTCTTGGGGTTCAAGGAAGCTGGAGATATTACTGCAGTAGAACTCTTTTACCATGAGCTTGCTAGAAGAGGCTTTAAGCCAAACAGTATAACTTATAATATTAGGATTGATGCTTACTGTAAAAGAGGTTGTTTTGCTGATGGTTTGAGGCTTTTTGAAGAAATGGAAAGGGCCAAATTGTCGCCTGCATTACAGACTATCACTACACTGATTCATGGAGCTGGGGTTGTTCGGAATCCAATTAAGGCACAACAGTTATTTGATGAGATTCATTTGAGAAATTTGCTTCCTGATACTGGGGCTTATAATGCTTTAATGAGTTCACTTATTAGATCCAACGATGTGCAGTCAGCAGTTGCCTTGATGGATGAGATGGAAGAGAAGCATATTAAGCATGATCATATGACTTATCACACCATGTTTTCTGGCCTGATGAGAACATCAGGTATTGAGGGGACTTCGGATCTGTATTACAAAATGGTTGATAGAAATTTTGTGCCCAAAACACGAACAGTGGTGATGTTAATTAAATTTTTCTGTGCAAATCATCAGCTTGATTTGGGTTTGCACTTGTGGGGATACCTAGTGGAGAAAGGATATTGCCCTCATGGTCATGCATTGGATCTTTTGTTAACAGCATTATGCTCCCGCAGTAGGGCAATAGAAGCTTTTGAGTGCTCCTTACAAATGTTGGAGAGAGGGAGGGATATGAGTGAAGCATCATTTCGGACATTAGAGACTTTTCTGCTTCAAGCTGGTGAGACAGACAAGCTGAGTAAGCTTAAGCAGATGAGGCAGAAACTGCATAATCTGCTGGCCCATTAA

Protein Analysis

501

Amino Acids

57.19

Weight (kDa)

9.0

Isoelectric Point (pI)

42.73

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 190 - 231 7.2e-07 PPR repeat family
PPR_2 PF13041 219 - 268 1.8e-10 PPR repeat family
PPR_1 PF12854 250 - 283 4.5e-08 PPR repeat
PPR_2 PF13041 254 - 300 7.2e-11 PPR repeat family
PPR PF01535 257 - 285 1.6e-06 PPR repeat
PPR_long PF17177 271 - 390 3.1e-06 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 324 - 372 1.7e-11 PPR repeat family
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 2 cut(s) 777, 987
AccB1I GGYRCC 1 cut(s) 263
AccI GTMKAC 1 cut(s) 126
AciI CCGC 1 cut(s) 1330
AclWI GGATC 3 cut(s) 1008, 1152, 1311
AcoI YGGCCR 1 cut(s) 94
AcsI RAATTY 3 cut(s) 961, 1171, 1211
AcuI CTGAAG 1 cut(s) 467
AfaI GTAC 2 cut(s) 559, 576
AfiI CCNNNNNNNGG 3 cut(s) 977, 1335, 1336
AflII CTTAAG 1 cut(s) 1463
AgsI TTSAA 7 cut(s) 185, 301, 350, 518, 694, 839, 1433
AjnI CCWGG 1 cut(s) 371
Alw21I GWGCWC 1 cut(s) 1361
Alw26I GTCTC 3 cut(s) 521, 1412, 1436
AlwI GGATC 3 cut(s) 1008, 1152, 1311
AlwNI CAGNNNCTG 1 cut(s) 1483
AoxI GGCC 4 cut(s) 94, 852, 1108, 1497
ApeKI GCWGC 2 cut(s) 80, 358
ApoI RAATTY 3 cut(s) 961, 1171, 1211
AspLEI GCGC 1 cut(s) 381
AspS9I GGNCC 2 cut(s) 852, 1498
AsuHPI GGTGA 4 cut(s) 245, 645, 1210, 1451
BaeGI GKGCMC 2 cut(s) 268, 1182
BanI GGYRCC 1 cut(s) 263
BarI GAAGNNNNNNTAC 2 cut(s) 415, 447
Bbv12I GWGCWC 1 cut(s) 1361
BbvI GCAGC 2 cut(s) 67, 345
BccI CCATC 7 cut(s) 168, 321, 400, 517, 815, 1039, 1048
BciT130I CCWGG 1 cut(s) 373
BciVI GTATCC 2 cut(s) 100, 1253
BclI TGATCA 2 cut(s) 172, 1078
BcoDI GTCTC 3 cut(s) 521, 1412, 1436
BfaI CTAG 3 cut(s) 144, 744, 1265
BfmI CTRYAG 2 cut(s) 111, 714
BfrI CTTAAG 1 cut(s) 1463
BfuI GTATCC 2 cut(s) 100, 1253
BisI GCNGC 2 cut(s) 81, 359
BlsI GCNGC 2 cut(s) 82, 360
Bme1390I CCNGG 1 cut(s) 373
BmgT120I GGNCC 2 cut(s) 852, 1498
BmiI GGNNCC 2 cut(s) 31, 265
BmrFI CCNGG 1 cut(s) 373
BmrI ACTGGG 2 cut(s) 316, 987
BmsI GCATC 7 cut(s) 331, 366, 436, 468, 627, 781, 1409
BmuI ACTGGG 2 cut(s) 316, 987
BplI GAGNNNNNCTC 2 cut(s) 605, 637
BpmI CTGGAG 2 cut(s) 182, 723
BpuEI CTTGAG 2 cut(s) 5, 311
BsaBI GATNNNNATC 1 cut(s) 458
BsaXI ACNNNNNCTCC 2 cut(s) 891, 921
Bsc4I CCNNNNNNNGG 3 cut(s) 977, 1335, 1336
Bse118I RCCGGY 1 cut(s) 187
Bse1I ACTGG 2 cut(s) 322, 982
Bse8I GATNNNNATC 1 cut(s) 458
BseBI CCWGG 1 cut(s) 373
BseGI GGATG 6 cut(s) 127, 160, 363, 381, 427, 1054
BseJI GATNNNNATC 1 cut(s) 458
BseLI CCNNNNNNNGG 3 cut(s) 977, 1335, 1336
BseMII CTCAG 2 cut(s) 636, 1445
BseNI ACTGG 2 cut(s) 322, 982
BseSI GKGCMC 2 cut(s) 268, 1182
BseXI GCAGC 2 cut(s) 67, 345
BseYI CCCAGC 1 cut(s) 902
BsgI GTGCAG 2 cut(s) 344, 1046
BshFI GGCC 4 cut(s) 96, 854, 1110, 1499
BshNI GGYRCC 1 cut(s) 263
BsiHKAI GWGCWC 1 cut(s) 1361
BsiSI CCGG 2 cut(s) 93, 188
BslFI GGGAC 1 cut(s) 1150
BslI CCNNNNNNNGG 3 cut(s) 977, 1335, 1336
BsmAI GTCTC 3 cut(s) 521, 1412, 1436
BsmFI GGGAC 1 cut(s) 1150
BsmI GAATGC 1 cut(s) 640
BsnI GGCC 4 cut(s) 96, 854, 1110, 1499
Bsp1286I GDGCHC 3 cut(s) 268, 1182, 1361
Bsp143I GATC 5 cut(s) 172, 1013, 1078, 1144, 1303
BspACI CCGC 1 cut(s) 1330
BspANI GGCC 4 cut(s) 96, 854, 1110, 1499
BspCNI CTCAG 2 cut(s) 635, 1446
BspLI GGNNCC 2 cut(s) 31, 265
BspMAI CTGCAG 1 cut(s) 718
BspPI GGATC 3 cut(s) 1008, 1152, 1311
BspQI GCTCTTC 1 cut(s) 198
BspT107I GGYRCC 1 cut(s) 263
BspTI CTTAAG 1 cut(s) 1463
BsrFI RCCGGY 1 cut(s) 187
BsrI ACTGG 2 cut(s) 322, 982
BssAI RCCGGY 1 cut(s) 187
BssMI GATC 5 cut(s) 172, 1013, 1078, 1144, 1303
Bst2UI CCWGG 1 cut(s) 373
Bst4CI ACNGT 4 cut(s) 767, 800, 936, 1195
Bst6I CTCTTC 4 cut(s) 198, 222, 742, 1053
BstAFI CTTAAG 1 cut(s) 1463
BstAPI GCANNNNNTGC 2 cut(s) 1483, 1492
BstC8I GCNNGC 4 cut(s) 619, 741, 867, 1497
BstDEI CTNAG 3 cut(s) 581, 622, 1454
BstEII GGTNACC 1 cut(s) 251
BstF5I GGATG 6 cut(s) 127, 160, 363, 381, 427, 1054
BstHHI GCGC 1 cut(s) 381
BstKTI GATC 5 cut(s) 175, 1016, 1081, 1147, 1306
BstMAI GTCTC 3 cut(s) 521, 1412, 1436
BstMBI GATC 5 cut(s) 172, 1013, 1078, 1144, 1303
BstMWI GCNNNNNNNGC 7 cut(s) 989, 1072, 1346, 1459, 1474, 1483, 1492
BstNI CCWGG 1 cut(s) 373
BstPI GGTNACC 1 cut(s) 251
BstSCI CCNGG 1 cut(s) 371
BstSFI CTRYAG 2 cut(s) 111, 714
BstSLI GKGCMC 2 cut(s) 268, 1182
BstV1I GCAGC 2 cut(s) 67, 345
BstX2I RGATCY 3 cut(s) 1013, 1144, 1303
BstXI CCANNNNNNTGG 1 cut(s) 275
BstYI RGATCY 3 cut(s) 1013, 1144, 1303
BsuI GTATCC 2 cut(s) 100, 1253
BsuRI GGCC 4 cut(s) 96, 854, 1110, 1499
BtsCI GGATG 6 cut(s) 127, 160, 363, 381, 427, 1054
BtsIMutI CAGTG 2 cut(s) 887, 1200
Cac8I GCNNGC 4 cut(s) 619, 741, 867, 1497
CaiI CAGNNNCTG 1 cut(s) 1483
CfoI GCGC 1 cut(s) 381
Cfr10I RCCGGY 1 cut(s) 187
Cfr13I GGNCC 2 cut(s) 852, 1498
CseI GACGC 1 cut(s) 364
Csp6I GTAC 2 cut(s) 558, 575
CviAII CATG 8 cut(s) 463, 670, 734, 896, 1076, 1099, 1289, 1295
CviQI GTAC 2 cut(s) 558, 575
DdeI CTNAG 3 cut(s) 581, 622, 1454
DpnI GATC 5 cut(s) 174, 1015, 1080, 1146, 1305
DpnII GATC 5 cut(s) 172, 1013, 1078, 1144, 1303
DraI TTTAAA 1 cut(s) 54
EaeI YGGCCR 1 cut(s) 94
Eam1104I CTCTTC 4 cut(s) 198, 222, 742, 1053
EarI CTCTTC 4 cut(s) 198, 222, 742, 1053
Eco57I CTGAAG 1 cut(s) 467
Eco91I GGTNACC 1 cut(s) 251
EcoO65I GGTNACC 1 cut(s) 251
EcoRII CCWGG 1 cut(s) 371
EcoT22I ATGCAT 3 cut(s) 429, 642, 1300
FaeI CATG 8 cut(s) 466, 673, 737, 899, 1079, 1102, 1292, 1298
FalI AAGNNNNNCTT 2 cut(s) 489, 521
FaqI GGGAC 1 cut(s) 1150
FatI CATG 8 cut(s) 462, 669, 733, 895, 1075, 1098, 1288, 1294
FauI CCCGC 1 cut(s) 1337
FauNDI CATATG 1 cut(s) 1083
FbaI TGATCA 2 cut(s) 172, 1078
FblI GTMKAC 1 cut(s) 126
Fnu4HI GCNGC 2 cut(s) 81, 359
FokI GGATG 6 cut(s) 134, 147, 350, 388, 414, 1061
Fsp4HI GCNGC 2 cut(s) 81, 359
FspBI CTAG 3 cut(s) 144, 744, 1265
GlaI GCGC 1 cut(s) 380
GluI GCNGC 2 cut(s) 81, 359
GsaI CCCAGC 1 cut(s) 906
GsuI CTGGAG 2 cut(s) 182, 723
HaeIII GGCC 4 cut(s) 96, 854, 1110, 1499
HapII CCGG 2 cut(s) 93, 188
HgaI GACGC 1 cut(s) 364
HhaI GCGC 1 cut(s) 381
Hin1II CATG 8 cut(s) 466, 673, 737, 899, 1079, 1102, 1292, 1298
Hin6I GCGC 1 cut(s) 379
HinP1I GCGC 1 cut(s) 379
HincII GTYRAC 2 cut(s) 127, 1314
HindII GTYRAC 2 cut(s) 127, 1314
HindIII AAGCTT 2 cut(s) 1347, 1460
HinfI GANTC 4 cut(s) 18, 892, 916, 949
HpaI GTTAAC 1 cut(s) 1314
HpaII CCGG 2 cut(s) 93, 188
HphI GGTGA 4 cut(s) 245, 645, 1210, 1451
Hpy166II GTNNAC 3 cut(s) 127, 1004, 1314
Hpy188I TCNGA 4 cut(s) 340, 915, 1144, 1410
Hpy188III TCNNGA 5 cut(s) 22, 170, 199, 290, 971
Hpy8I GTNNAC 3 cut(s) 127, 1004, 1314
HpyAV CCTTC 2 cut(s) 441, 604
HpyCH4III ACNGT 4 cut(s) 767, 800, 936, 1195
HpyCH4IV ACGT 1 cut(s) 328
HpyF10VI GCNNNNNNNGC 7 cut(s) 989, 1072, 1346, 1459, 1474, 1483, 1492
HpyF3I CTNAG 3 cut(s) 581, 622, 1454
HpySE526I ACGT 1 cut(s) 328
Hsp92II CATG 8 cut(s) 466, 673, 737, 899, 1079, 1102, 1292, 1298
HspAI GCGC 1 cut(s) 379
Ksp22I TGATCA 2 cut(s) 172, 1078
KspAI GTTAAC 1 cut(s) 1314
Kzo9I GATC 5 cut(s) 172, 1013, 1078, 1144, 1303
LguI GCTCTTC 1 cut(s) 198
LmnI GCTCC 4 cut(s) 9, 899, 1331, 1364
Lsp1109I GCAGC 2 cut(s) 67, 345
LweI GCATC 7 cut(s) 331, 366, 436, 468, 627, 781, 1409
MaeI CTAG 3 cut(s) 144, 744, 1265
MaeII ACGT 1 cut(s) 328
MaeIII GTNAC 2 cut(s) 251, 324
MalI GATC 5 cut(s) 174, 1015, 1080, 1146, 1305
MboI GATC 5 cut(s) 172, 1013, 1078, 1144, 1303
MboII GAAGA 7 cut(s) 185, 209, 289, 509, 759, 851, 1070
MflI RGATCY 3 cut(s) 1013, 1144, 1303
MhlI GDGCHC 3 cut(s) 268, 1182, 1361
MluCI AATT 9 cut(s) 38, 147, 301, 857, 921, 961, 1171, 1206, 1211
MlyI GAGTC 1 cut(s) 12
MmeI TCCRAC 3 cut(s) 68, 1041, 1353
Mph1103I ATGCAT 3 cut(s) 429, 642, 1300
MslI CAYNNNNRTG 3 cut(s) 273, 635, 1293
MspCI CTTAAG 1 cut(s) 1463
MspI CCGG 2 cut(s) 93, 188
MspR9I CCNGG 1 cut(s) 373
Mva1269I GAATGC 1 cut(s) 640
MvaI CCWGG 1 cut(s) 373
MwoI GCNNNNNNNGC 7 cut(s) 989, 1072, 1346, 1459, 1474, 1483, 1492
NdeI CATATG 1 cut(s) 1083
NdeII GATC 5 cut(s) 172, 1013, 1078, 1144, 1303
NlaIII CATG 8 cut(s) 466, 673, 737, 899, 1079, 1102, 1292, 1298
NlaIV GGNNCC 2 cut(s) 31, 265
NmuCI GTSAC 1 cut(s) 251
NsiI ATGCAT 3 cut(s) 429, 642, 1300
PacI TTAATTAA 1 cut(s) 1209
PciSI GCTCTTC 1 cut(s) 198
PctI GAATGC 1 cut(s) 640
PfeI GAWTC 3 cut(s) 892, 916, 949
PkrI GCNGC 2 cut(s) 82, 360
PleI GAGTC 1 cut(s) 12
PpsI GAGTC 1 cut(s) 12
PsiI TTATAA 2 cut(s) 777, 987
Psp6I CCWGG 1 cut(s) 371
PspEI GGTNACC 1 cut(s) 251
PspFI CCCAGC 1 cut(s) 902
PspGI CCWGG 1 cut(s) 371
PspN4I GGNNCC 2 cut(s) 31, 265
PspPI GGNCC 2 cut(s) 852, 1498
PstI CTGCAG 1 cut(s) 718
PstNI CAGNNNCTG 1 cut(s) 1483
PsuI RGATCY 3 cut(s) 1013, 1144, 1303
RsaI GTAC 2 cut(s) 559, 576
RsaNI GTAC 2 cut(s) 558, 575
RseI CAYNNNNRTG 3 cut(s) 273, 635, 1293
SalI GTCGAC 1 cut(s) 125
SapI GCTCTTC 1 cut(s) 198
SatI GCNGC 2 cut(s) 81, 359
Sau3AI GATC 5 cut(s) 172, 1013, 1078, 1144, 1303
Sau96I GGNCC 2 cut(s) 852, 1498
SchI GAGTC 1 cut(s) 12
ScrFI CCNGG 1 cut(s) 373
SduI GDGCHC 3 cut(s) 268, 1182, 1361
SfaNI GCATC 7 cut(s) 331, 366, 436, 468, 627, 781, 1409
SfcI CTRYAG 2 cut(s) 111, 714
SmiMI CAYNNNNRTG 3 cut(s) 273, 635, 1293
SmlI CTYRAG 3 cut(s) 20, 290, 1463
SmoI CTYRAG 3 cut(s) 20, 290, 1463
Sse9I AATT 9 cut(s) 38, 147, 301, 857, 921, 961, 1171, 1206, 1211
SsiI CCGC 1 cut(s) 1330
SspI AATATT 1 cut(s) 781
SspMI CTAG 3 cut(s) 144, 744, 1265
StyD4I CCNGG 1 cut(s) 371
TaaI ACNGT 4 cut(s) 767, 800, 936, 1195
TaiI ACGT 1 cut(s) 331
TaqI TCGA 2 cut(s) 126, 452
TasI AATT 9 cut(s) 38, 147, 301, 857, 921, 961, 1171, 1206, 1211
TatI WGTACW 1 cut(s) 574
TfiI GAWTC 3 cut(s) 892, 916, 949
TscAI CASTG 2 cut(s) 894, 1200
TseFI GTSAC 1 cut(s) 251
TseI GCWGC 2 cut(s) 80, 358
Tsp45I GTSAC 1 cut(s) 251
TspDTI ATGAA 6 cut(s) 510, 619, 623, 686, 884, 941
TspGWI ACGGA 1 cut(s) 134
TspRI CASTG 2 cut(s) 894, 1200
Vha464I CTTAAG 1 cut(s) 1463
XapI RAATTY 3 cut(s) 961, 1171, 1211
XmiI GTMKAC 1 cut(s) 126
XspI CTAG 3 cut(s) 144, 744, 1265
Zsp2I ATGCAT 3 cut(s) 429, 642, 1300
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.