Rw4G033370

Pentatricopeptide repeat-containing protein At2g01510

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr4
OG0013352
Physical Location & Seq
Reverse (-)
60497202 .. 60499043
1842 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw4G033370.1

Sequence Viewer

Length: 1842 bp
ATGCTGCAAGTTTGCAGAAGACATTCCAAGCTGTGCTTAGCTCTCTCACTCAACCCAATATCCCAGTTCTCCTCTCTGGACCAGACCCCAAAACCCGAACCGATTCGTCTGACCATTACCAAGCAAGCCTTCACCGCCCAGTTGCAATCATGCTCCTCACACCCAAACCAGCTCAAGCAAATCCACGCCCTCATTCTCACCACCGGAATCTCCATCAAGAACAGCCTCCTCACCCATCTCATCACCGCCTTCATAATCTTGGGCGACGTTTCCTATGCACGTAAGGTGTTCGACGAAATGCACAAGCCAAGAGTGTTTCTATGGAACACCATTATCAAAGCGTACGTTAAATACCAAGACTTTATGGAGGCTGCGGCTGTGTACAGAAGAATGAAGCGTCTGGGTGTTCGCCCTGACGACTTTACGTACACGTTTGTGGTCAAGGCGTGTGCTCAGCTGCCGTGGGCCGGGTGGGCTGTCGCGGCGCACGCGGTGAAATATGGGTTGGAGTTTGTTGTTGAAGTGAGGACTGAGTTGGTGATAATGTGTGTGAAATATGGGGAGTTGGGTTTGGCGGATTTTTTGTTCCGAACTATGGTCGAGAGAGATTTAGTTGCTTGGAATGCTTTTGTTGCTGCTTGTGTGCAGAGTGGACATGCTGCAAAGGCTCTTCATTTGTTTCGCCGGATGCGTGTGGCTGGAGTGGAGCCTGATGCTGTTACGGTTGTGAGTGCTTTTTCGGCTTGTGGTCAGTTAGGGTGTTTGGAGACTGGGGAAGAGATTGATGGGGTTATGAGACAATGTGGGATTGTTTGCAATGTAATTGTTGACAATGCGCGGCTTGATATGTATGTCAAATGCGGTAGCGTGGACATGGCTGAGGCTTTGTTTGAGGATATGCATCAGAGAAATGTTATTTCCTGGAGCACTATGGTATTAGGGTATGCAATAAATGGGGAGAGCCGCAAGGCATTGGATATGTTTTCGAGGATGCAAAAGCGAGGAGTTGCTCCCAACCATGTCACGTATCTAGGAGTTTTATCCGCATGCAGCCATGCTGGGCTGGTGAATGAAGGCAAATCTCATTTTAGGCGCATGGTGCAAGCTGGTGACAAGAATATTCAACCGAAAATAGAGCACTATGCTTGCATGGTTGATCTCCTTGGTCGGTCAGGACATCTTGAGGAGGCTTATAACTTCATAAGAAGTATGCCAATTGAGCTCGATACCGGGGTGTGGGGAGCTTTATTGGGTGCGTGTGCAATCCACCAAAACGTTGAACTGGGTCAGCATGTAGCTGATTTGCTTTTTGAATTAGCTCCTGCTAATGGTTCATATCATGTCTTGATGTCAAACATGTATGCGGCTGCTGGAAGATGGGACTGTGTTGACAAGGTGAGGCTCAAAATGAGAAAAGGAGGTGTTAAGAAAGTAGCTGCCTATAGCTCAGTAGAGTTTAATGGAAAAATCCATATATTTTATGGTGGTAACAGATTGCATCCAGAATCATCAGAAATATATGAAAAATTGGAGGATTTATTAAGACAAGTGAAGAATATAGGTTACACTCCAAATATCACCTCTGTGTTTCATGATGTGGGCACAGAGGAAAAGGAAGCCACACTCAGTCATCACAGTGAAAAGCTTGCCATTGCATTTAGTCTTCTAAATCTACAGCCTGAATGCCCCATTAGAGTGGTGAAGAATTTACGGATATGTGATGACTGCCACAGTTTCTGTAAATTTGTCTCCAAAGCGACCAAAAGGGTGATTATCATGAGAGATAAAATCCGTTTTCATCATTTTAGAAATGGTGAGTGTTCTTGCAACAACTTTTGGTGA

Protein Analysis

613

Amino Acids

68.85

Weight (kDa)

8.79

Isoelectric Point (pI)

44.81

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 103 - 151 8.2e-13 PPR repeat family
PPR_2 PF13041 203 - 249 4.5e-08 PPR repeat family
PPR_2 PF13041 303 - 351 4.1e-11 PPR repeat family
PPR PF01535 306 - 336 2.2e-06 PPR repeat
E_motif PF20431 423 - 484 7.2e-14 E motif
DYW_deaminase PF14432 521 - 613 1.2e-38 DYW family of nucleic acid deaminases
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) 1194
AccII CGCG 3 cut(s) 482, 491, 838
AclI AACGTT 1 cut(s) 1275
AcsI RAATTY 2 cut(s) 1705, 1742
AdeI CACNNNGTG 1 cut(s) 493
AfaI GTAC 3 cut(s) 344, 383, 428
AfiI CCNNNNNNNGG 4 cut(s) 467, 595, 1236, 1328
AflIII ACRYGT 2 cut(s) 429, 1356
AgsI TTSAA 4 cut(s) 521, 1124, 1280, 1313
AjnI CCWGG 1 cut(s) 920
AjuI GAANNNNNNNTTGG 4 cut(s) 113, 145, 488, 520
AleI CACNNNNGTG 2 cut(s) 434, 1583
AloI GAACNNNNNNTCC 2 cut(s) 569, 601
Alw21I GWGCWC 4 cut(s) 454, 929, 1140, 1224
Alw26I GTCTC 3 cut(s) 761, 790, 1753
AlwNI CAGNNNCTG 1 cut(s) 1737
AoxI GGCC 1 cut(s) 465
ApeKI GCWGC 8 cut(s) 4, 371, 457, 635, 659, 1050, 1367, 1436
ApoI RAATTY 2 cut(s) 1705, 1742
Asp700I GAANNNNTTC 2 cut(s) 22, 102
AspLEI GCGC 3 cut(s) 487, 838, 1095
AspS9I GGNCC 2 cut(s) 79, 465
AsuC2I CCSGG 2 cut(s) 469, 1231
AvaII GGWCC 1 cut(s) 79
BaeGI GKGCMC 1 cut(s) 1604
BaeI ACNNNNGTAYC 2 cut(s) 1218, 1251
BanII GRGCYC 1 cut(s) 1224
BbsI GAAGAC 2 cut(s) 25, 1655
Bbv12I GWGCWC 4 cut(s) 454, 929, 1140, 1224
BbvCI CCTCAGC 1 cut(s) 879
BbvI GCAGC 7 cut(s) 358, 444, 622, 646, 1062, 1354, 1423
BccI CCATC 4 cut(s) 221, 243, 779, 1371
BceAI ACGGC 1 cut(s) 445
BciT130I CCWGG 1 cut(s) 922
BcnI CCSGG 2 cut(s) 469, 1231
BcoDI GTCTC 3 cut(s) 761, 790, 1753
BfaI CTAG 1 cut(s) 1031
BfmI CTRYAG 2 cut(s) 1441, 1673
BglI GCCNNNNNGGC 1 cut(s) 473
BlpI GCTNAGC 2 cut(s) 37, 453
Bme1390I CCNGG 3 cut(s) 469, 922, 1231
Bme18I GGWCC 1 cut(s) 79
BmgT120I GGNCC 2 cut(s) 79, 465
BmiI GGNNCC 1 cut(s) 708
BmrFI CCNGG 3 cut(s) 469, 922, 1231
BmrI ACTGGG 4 cut(s) 58, 133, 780, 1292
BmsI GCATC 5 cut(s) 678, 703, 910, 981, 1507
BmuI ACTGGG 4 cut(s) 58, 133, 780, 1292
BpiI GAAGAC 2 cut(s) 25, 1655
BpmI CTGGAG 2 cut(s) 720, 943
Bpu10I CCTNAGC 1 cut(s) 879
Bpu1102I GCTNAGC 2 cut(s) 37, 453
BpuEI CTTGAG 2 cut(s) 158, 1202
BpuMI CCSGG 2 cut(s) 469, 1231
BsaAI YACGTR 3 cut(s) 281, 426, 1026
BsaBI GATNNNNATC 1 cut(s) 900
BsaJI CCNNGG 3 cut(s) 461, 1162, 1230
BsaWI WCCGGW 1 cut(s) 203
Bsc4I CCNNNNNNNGG 4 cut(s) 467, 595, 1236, 1328
Bse1I ACTGG 4 cut(s) 64, 139, 775, 1287
Bse3DI GCAATG 2 cut(s) 823, 1650
Bse8I GATNNNNATC 1 cut(s) 900
BseBI CCWGG 1 cut(s) 922
BseDI CCNNGG 3 cut(s) 461, 1162, 1230
BseGI GGATG 3 cut(s) 693, 996, 1498
BseJI GATNNNNATC 1 cut(s) 900
BseLI CCNNNNNNNGG 4 cut(s) 467, 595, 1236, 1328
BseMI GCAATG 2 cut(s) 823, 1650
BseMII CTCAG 5 cut(s) 467, 522, 870, 1461, 1639
BseNI ACTGG 4 cut(s) 64, 139, 775, 1287
BseRI GAGGAG 5 cut(s) 61, 145, 218, 1017, 1199
BseSI GKGCMC 1 cut(s) 1604
BseXI GCAGC 7 cut(s) 358, 444, 622, 646, 1062, 1354, 1423
BseYI CCCAGC 1 cut(s) 1058
BsgI GTGCAG 1 cut(s) 665
Bsh1236I CGCG 3 cut(s) 482, 491, 838
BshFI GGCC 1 cut(s) 467
BsiHKAI GWGCWC 4 cut(s) 454, 929, 1140, 1224
BsiSI CCGG 4 cut(s) 204, 468, 685, 1230
BsiWI CGTACG 1 cut(s) 342
BslFI GGGAC 1 cut(s) 1394
BslI CCNNNNNNNGG 4 cut(s) 467, 595, 1236, 1328
BsmAI GTCTC 3 cut(s) 761, 790, 1753
BsmFI GGGAC 1 cut(s) 1394
BsmI GAATGC 2 cut(s) 628, 1688
BsnI GGCC 1 cut(s) 467
Bsp1286I GDGCHC 5 cut(s) 454, 929, 1140, 1224, 1604
Bsp1407I TGTACA 1 cut(s) 381
Bsp143I GATC 1 cut(s) 1156
Bsp1720I GCTNAGC 2 cut(s) 37, 453
BspANI GGCC 1 cut(s) 467
BspCNI CTCAG 5 cut(s) 466, 523, 871, 1460, 1638
BspFNI CGCG 3 cut(s) 482, 491, 838
BspHI TCATGA 2 cut(s) 1591, 1776
BspLI GGNNCC 1 cut(s) 708
BspQI GCTCTTC 1 cut(s) 675
BsrDI GCAATG 2 cut(s) 823, 1650
BsrGI TGTACA 1 cut(s) 381
BsrI ACTGG 4 cut(s) 64, 139, 775, 1287
BssECI CCNNGG 3 cut(s) 461, 1162, 1230
BssMI GATC 1 cut(s) 1156
BssT1I CCWWGG 1 cut(s) 1162
Bst2UI CCWGG 1 cut(s) 922
Bst4CI ACNGT 4 cut(s) 724, 1385, 1637, 1733
Bst6I CTCTTC 2 cut(s) 675, 771
BstAUI TGTACA 1 cut(s) 381
BstBAI YACGTR 3 cut(s) 281, 426, 1026
BstC8I GCNNGC 6 cut(s) 126, 489, 1048, 1104, 1147, 1647
BstDEI CTNAG 6 cut(s) 37, 453, 531, 879, 1447, 1625
BstDSI CCRYGG 1 cut(s) 461
BstF5I GGATG 3 cut(s) 693, 996, 1498
BstFNI CGCG 3 cut(s) 482, 491, 838
BstHHI GCGC 3 cut(s) 487, 838, 1095
BstKTI GATC 1 cut(s) 1159
BstMAI GTCTC 3 cut(s) 761, 790, 1753
BstMBI GATC 1 cut(s) 1156
BstNI CCWGG 1 cut(s) 922
BstNSI RCATGY 4 cut(s) 659, 1050, 1295, 1360
BstSCI CCNGG 3 cut(s) 467, 920, 1229
BstSFI CTRYAG 2 cut(s) 1441, 1673
BstSLI GKGCMC 1 cut(s) 1604
BstSNI TACGTA 1 cut(s) 426
BstUI CGCG 3 cut(s) 482, 491, 838
BstV1I GCAGC 7 cut(s) 358, 444, 622, 646, 1062, 1354, 1423
BstV2I GAAGAC 2 cut(s) 25, 1655
BstXI CCANNNNNNTGG 1 cut(s) 1696
BsuRI GGCC 1 cut(s) 467
BtgI CCRYGG 1 cut(s) 461
BtsCI GGATG 3 cut(s) 693, 996, 1498
BtsIMutI CAGTG 1 cut(s) 1642
Cac8I GCNNGC 6 cut(s) 126, 489, 1048, 1104, 1147, 1647
CaiI CAGNNNCTG 1 cut(s) 1737
CciI TCATGA 2 cut(s) 1591, 1776
CfoI GCGC 3 cut(s) 487, 838, 1095
Cfr13I GGNCC 2 cut(s) 79, 465
CseI GACGC 1 cut(s) 386
Csp6I GTAC 3 cut(s) 343, 382, 427
CviQI GTAC 3 cut(s) 343, 382, 427
DdeI CTNAG 6 cut(s) 37, 453, 531, 879, 1447, 1625
DpnI GATC 1 cut(s) 1158
DpnII GATC 1 cut(s) 1156
DraIII CACNNNGTG 1 cut(s) 493
Eam1104I CTCTTC 2 cut(s) 675, 771
EarI CTCTTC 2 cut(s) 675, 771
EciI GGCGGA 1 cut(s) 590
Ecl136II GAGCTC 1 cut(s) 1222
Eco105I TACGTA 1 cut(s) 426
Eco130I CCWWGG 1 cut(s) 1162
Eco24I GRGCYC 1 cut(s) 1224
Eco47I GGWCC 1 cut(s) 79
Eco53kI GAGCTC 1 cut(s) 1222
EcoICRI GAGCTC 1 cut(s) 1222
EcoRII CCWGG 1 cut(s) 920
EcoT14I CCWWGG 1 cut(s) 1162
EcoT22I ATGCAT 1 cut(s) 903
EcoT38I GRGCYC 1 cut(s) 1224
ErhI CCWWGG 1 cut(s) 1162
FalI AAGNNNNNCTT 4 cut(s) 20, 52, 113, 145
FaqI GGGAC 1 cut(s) 1394
FokI GGATG 3 cut(s) 700, 1003, 1485
FriOI GRGCYC 1 cut(s) 1224
FspBI CTAG 1 cut(s) 1031
GlaI GCGC 3 cut(s) 486, 837, 1094
GsaI CCCAGC 1 cut(s) 1062
GsuI CTGGAG 2 cut(s) 720, 943
HaeIII GGCC 1 cut(s) 467
HapII CCGG 4 cut(s) 204, 468, 685, 1230
HgaI GACGC 1 cut(s) 386
HhaI GCGC 3 cut(s) 487, 838, 1095
Hin6I GCGC 3 cut(s) 485, 836, 1093
HinP1I GCGC 3 cut(s) 485, 836, 1093
HincII GTYRAC 2 cut(s) 829, 1390
HindII GTYRAC 2 cut(s) 829, 1390
HindIII AAGCTT 1 cut(s) 1643
HinfI GANTC 3 cut(s) 103, 207, 1505
HpaII CCGG 4 cut(s) 204, 468, 685, 1230
Hpy166II GTNNAC 6 cut(s) 382, 429, 653, 829, 871, 1390
Hpy188I TCNGA 4 cut(s) 111, 590, 906, 1513
Hpy188III TCNNGA 9 cut(s) 77, 217, 601, 1173, 1181, 1345, 1502, 1592, 1777
Hpy8I GTNNAC 6 cut(s) 382, 429, 653, 829, 871, 1390
Hpy99I CGWCG 2 cut(s) 269, 296
HpyAV CCTTC 3 cut(s) 139, 259, 1067
HpyCH4III ACNGT 4 cut(s) 724, 1385, 1637, 1733
HpyCH4IV ACGT 7 cut(s) 267, 280, 345, 425, 431, 1025, 1275
HpyF3I CTNAG 6 cut(s) 37, 453, 531, 879, 1447, 1625
HpySE526I ACGT 7 cut(s) 267, 280, 345, 425, 431, 1025, 1275
HspAI GCGC 3 cut(s) 485, 836, 1093
Kzo9I GATC 1 cut(s) 1156
LguI GCTCTTC 1 cut(s) 675
LmnI GCTCC 6 cut(s) 158, 706, 924, 1015, 1241, 1324
Lsp1109I GCAGC 7 cut(s) 358, 444, 622, 646, 1062, 1354, 1423
LweI GCATC 5 cut(s) 678, 703, 910, 981, 1507
MaeI CTAG 1 cut(s) 1031
MaeII ACGT 7 cut(s) 267, 280, 345, 425, 431, 1025, 1275
MaeIII GTNAC 5 cut(s) 718, 1021, 1109, 1487, 1562
MalI GATC 1 cut(s) 1158
MboI GATC 1 cut(s) 1156
MboII GAAGA 8 cut(s) 30, 399, 662, 788, 1386, 1564, 1655, 1714
MfeI CAATTG 1 cut(s) 1215
MhlI GDGCHC 5 cut(s) 454, 929, 1140, 1224, 1604
MluCI AATT 6 cut(s) 822, 1215, 1313, 1526, 1705, 1742
MmeI TCCRAC 1 cut(s) 486
Mph1103I ATGCAT 1 cut(s) 903
MroXI GAANNNNTTC 2 cut(s) 22, 102
MseI TTAA 4 cut(s) 348, 1425, 1458, 1541
MslI CAYNNNNRTG 4 cut(s) 434, 1583, 1635, 1694
MspA1I CMGCKG 1 cut(s) 457
MspI CCGG 4 cut(s) 204, 468, 685, 1230
MspR9I CCNGG 3 cut(s) 469, 922, 1231
MunI CAATTG 1 cut(s) 1215
Mva1269I GAATGC 2 cut(s) 628, 1688
MvaI CCWGG 1 cut(s) 922
MvnI CGCG 3 cut(s) 482, 491, 838
NciI CCSGG 2 cut(s) 469, 1231
NdeII GATC 1 cut(s) 1156
NlaIV GGNNCC 1 cut(s) 708
NmuCI GTSAC 2 cut(s) 1021, 1109
NsiI ATGCAT 1 cut(s) 903
NspI RCATGY 4 cut(s) 659, 1050, 1295, 1360
OliI CACNNNNGTG 2 cut(s) 434, 1583
PaeI GCATGC 1 cut(s) 1050
PagI TCATGA 2 cut(s) 1591, 1776
PciI ACATGT 1 cut(s) 1356
PciSI GCTCTTC 1 cut(s) 675
PcsI WCGNNNNNNNCGW 1 cut(s) 688
PctI GAATGC 2 cut(s) 628, 1688
PdmI GAANNNNTTC 2 cut(s) 22, 102
PfeI GAWTC 3 cut(s) 103, 207, 1505
Pfl23II CGTACG 1 cut(s) 342
PfoI TCCNGGA 1 cut(s) 920
Ppu21I YACGTR 3 cut(s) 281, 426, 1026
PscI ACATGT 1 cut(s) 1356
PsiI TTATAA 1 cut(s) 1194
Psp124BI GAGCTC 1 cut(s) 1224
Psp1406I AACGTT 1 cut(s) 1275
Psp6I CCWGG 1 cut(s) 920
PspFI CCCAGC 1 cut(s) 1058
PspGI CCWGG 1 cut(s) 920
PspLI CGTACG 1 cut(s) 342
PspN4I GGNNCC 1 cut(s) 708
PspPI GGNCC 2 cut(s) 79, 465
PstNI CAGNNNCTG 1 cut(s) 1737
PvuII CAGCTG 1 cut(s) 457
RsaI GTAC 3 cut(s) 344, 383, 428
RsaNI GTAC 3 cut(s) 343, 382, 427
RseI CAYNNNNRTG 4 cut(s) 434, 1583, 1635, 1694
SacI GAGCTC 1 cut(s) 1224
SapI GCTCTTC 1 cut(s) 675
SaqAI TTAA 4 cut(s) 348, 1425, 1458, 1541
Sau3AI GATC 1 cut(s) 1156
Sau96I GGNCC 2 cut(s) 79, 465
ScrFI CCNGG 3 cut(s) 469, 922, 1231
SduI GDGCHC 5 cut(s) 454, 929, 1140, 1224, 1604
SfaNI GCATC 5 cut(s) 678, 703, 910, 981, 1507
SfcI CTRYAG 2 cut(s) 1441, 1673
SinI GGWCC 1 cut(s) 79
SmiMI CAYNNNNRTG 4 cut(s) 434, 1583, 1635, 1694
SmlI CTYRAG 2 cut(s) 173, 1181
SmoI CTYRAG 2 cut(s) 173, 1181
SnaBI TACGTA 1 cut(s) 426
SphI GCATGC 1 cut(s) 1050
Sse9I AATT 6 cut(s) 822, 1215, 1313, 1526, 1705, 1742
SspI AATATT 1 cut(s) 1120
SspMI CTAG 1 cut(s) 1031
SstI GAGCTC 1 cut(s) 1224
StyD4I CCNGG 3 cut(s) 467, 920, 1229
StyI CCWWGG 1 cut(s) 1162
TaaI ACNGT 4 cut(s) 724, 1385, 1637, 1733
TaiI ACGT 7 cut(s) 270, 283, 348, 428, 434, 1028, 1278
TaqI TCGA 4 cut(s) 291, 600, 986, 1224
TaqII GACCGA 1 cut(s) 1158
TasI AATT 6 cut(s) 822, 1215, 1313, 1526, 1705, 1742
TatI WGTACW 1 cut(s) 381
TauI GCSGC 5 cut(s) 377, 485, 841, 966, 1367
TfiI GAWTC 3 cut(s) 103, 207, 1505
Tru1I TTAA 4 cut(s) 348, 1425, 1458, 1541
Tru9I TTAA 4 cut(s) 348, 1425, 1458, 1541
TscAI CASTG 1 cut(s) 1642
TseFI GTSAC 2 cut(s) 1021, 1109
TseI GCWGC 8 cut(s) 4, 371, 457, 635, 659, 1050, 1367, 1436
Tsp45I GTSAC 2 cut(s) 1021, 1109
TspDTI ATGAA 9 cut(s) 241, 407, 662, 1086, 1189, 1323, 1536, 1580, 1787
TspGWI ACGGA 2 cut(s) 1726, 1781
TspRI CASTG 1 cut(s) 1642
VpaK11BI GGWCC 1 cut(s) 79
XapI RAATTY 2 cut(s) 1705, 1742
XceI RCATGY 4 cut(s) 659, 1050, 1295, 1360
XcmI CCANNNNNNNNNTGG 1 cut(s) 1478
XmnI GAANNNNTTC 2 cut(s) 22, 102
XspI CTAG 1 cut(s) 1031
Zsp2I ATGCAT 1 cut(s) 903
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.