AT4G18520

pentatricopeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0013463
Physical Location & Seq
Reverse (-)
10215096 .. 10217214
2119 bp
Loading structure...
UTR
Exon/CDS
Intron
AT4G18520.1

Sequence Viewer

Length: 1854 bp
ATGTTTTCGTTATCGTTAATCCAACCGCGTCTCCGGATTTCAGAGATTCCGGTGACTCAATCCTACAAATCTCCGACGATATGTTACAGTAGCGATTCAAGAACTAAGCGAGAGGAACAGAGACACGTGAGATTACCTGGGTTTCGATTAGTTTCTGGAAAGAGAGCATCTTTCGATTCGGGTTTTAGTGGTTTCAAAGGAGAGAATGTGAATCAGGATGATTCGTCTTCTTTCGATAGCGAAAGAGTTGATTATGCTCTGTTAGCGGAGTGGCTACAGTCTTCTAATGGGATGCGACTCATTAAAAGGATCCATGCGATGGCGTTGAAGTGTTTTGATGATCAAGTTATCTATTTTGGGAACAATTTGATTAGTTCTTGTGTTAGACTTGGTGATTTGGTTTATGCACGTAAAGTGTTCGACAGTATGCCTGAGAAAAATACTGTTACTTGGACTGCTATGATTGATGGGTATTTGAAGTATGGTCTTGAGGATGAGGCTTTTGCACTGTTTGAGGATTATGTGAAGCATGGAATACGTTTTACGAACGAGAGGATGTTTGTGTGTTTGTTGAATCTGTGTAGTAGGAGAGCAGAGTTTGAGTTAGGGAGACAAGTTCATGGTAATATGGTGAAAGTTGGAGTGGGGAATCTCATTGTGGAGAGTTCTCTTGTTTATTTTTATGCGCAATGCGGTGAATTGACAAGTGCGTTACGAGCTTTTGATATGATGGAGGAGAAAGATGTGATATCTTGGACTGCTGTTATATCGGCGTGTTCGAGAAAAGGGCATGGAATTAAAGCTATAGGCATGTTTATCGGAATGTTGAATCACTGGTTTTTGCCTAACGAGTTTACGGTGTGCAGTATTTTGAAGGCTTGTAGTGAGGAGAAAGCGTTAAGATTCGGAAGGCAAGTACACAGCTTGGTTGTTAAGAGGATGATAAAGACAGATGTTTTTGTGGGAACTTCGCTGATGGACATGTATGCTAAGTGTGGGGAGATTTCTGATTGCAGAAAAGTGTTTGATGGAATGAGTAATAGAAACACGGTCACATGGACTTCGATTATAGCTGCTCATGCTCGGGAAGGTTTTGGTGAGGAAGCTATCAGCCTCTTCCGGATAATGAAGAGGCGGCATTTGATTGCTAACAATTTGACAGTAGTAAGCATTCTTAGAGCGTGTGGATCTGTTGGAGCTTTATTGTTGGGGAAGGAACTTCATGCACAGATTATCAAGAATTCGATCGAAAAGAATGTCTATATAGGAAGTACTTTGGTGTGGCTGTATTGTAAATGCGGAGAATCTCGTGACGCTTTCAATGTTCTCCAGCAATTGCCATCTAGAGATGTGGTTTCATGGACCGCTATGATCTCTGGATGTTCGAGCTTAGGACATGAATCGGAAGCGCTAGACTTCTTGAAAGAGATGATTCAAGAAGGTGTAGAGCCAAACCCATTTACATACTCCTCGGCTTTAAAAGCTTGTGCGAATTCAGAATCTCTTCTTATCGGTAGATCAATCCATTCCATTGCAAAGAAGAATCATGCTCTATCAAATGTCTTTGTGGGAAGTGCTTTGATTCACATGTATGCAAAATGTGGATTTGTCTCGGAAGCTTTTCGGGTTTTTGACAGTATGCCTGAGAAGAACTTGGTTTCATGGAAGGCGATGATAATGGGTTATGCGAGGAATGGGTTTTGCAGGGAAGCATTGAAGCTAATGTATAGAATGGAGGCAGAGGGATTTGAAGTTGATGATTATATATTTGCAACAATTCTCTCTACTTGTGGAGATATTGAGCTCGATGAAGCTGTTGAATCTTCTGCAACTTGTTACTTGGAGACATCTTGA

Protein Analysis

617

Amino Acids

69.27

Weight (kDa)

7.17

Isoelectric Point (pI)

41.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 146 - 180 4e-06 PPR repeat family
PPR PF01535 149 - 179 3.2e-06 PPR repeat
PPR_2 PF13041 247 - 295 1.4e-06 PPR repeat family
PPR_2 PF13041 348 - 395 2.5e-08 PPR repeat family
PPR PF01535 351 - 379 1.1e-06 PPR repeat
PPR_2 PF13041 449 - 498 1.3e-12 PPR repeat family
PPR_3 PF13812 450 - 498 9.2e-06 Pentatricopeptide repeat domain
PPR PF01535 452 - 482 2.2e-07 PPR repeat
PPR PF01535 553 - 583 3.9e-07 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0013463)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G18520
fragaria_vesca FvH4_5g38291
malus_domestica MD15G1361300.v1.1
prunus_persica Prupe.1G508700_v2.0.a1
pyrus_communis pycom15g32280
rosa_chinensis RchiOBHm_Chr7g0240331
rosa_laevigata RLG00000000684
rosa_multiflora Rmu_sc0002676.1_g000012 Rmu_sc0025468.1_g000002 Rmu_sc0037875.1_g000001 Rmu_sc0038463.1_g000001
rosa_roxburghii Rroxscaffold_3G00220210
rosa_rugosa Rorug07G0334900
rosa_samantha Rh7AG489200 Rh7BG462100 Rh7CG505400 Rh7DG473200
rosa_wichuraiana Rw7G040930

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 687
AccB7I CCANNNNNTGG 1 cut(s) 319
AccII CGCG 1 cut(s) 28
AccIII TCCGGA 2 cut(s) 33, 1119
AciI CCGC 6 cut(s) 26, 266, 693, 1135, 1299, 1365
AclWI GGATC 3 cut(s) 304, 317, 1195
AcsI RAATTY 2 cut(s) 1240, 1492
AcvI CACGTG 1 cut(s) 127
AfaI GTAC 2 cut(s) 918, 1273
AfeI AGCGCT 1 cut(s) 1410
AfiI CCNNNNNNNGG 1 cut(s) 319
AflIII ACRYGT 3 cut(s) 124, 981, 1587
AjnI CCWGG 1 cut(s) 136
Alw21I GWGCWC 1 cut(s) 1806
Alw26I GTCTC 5 cut(s) 35, 115, 604, 1615, 1838
AlwI GGATC 3 cut(s) 304, 317, 1195
Ama87I CYCGRG 1 cut(s) 1083
Aor13HI TCCGGA 2 cut(s) 33, 1119
Aor51HI AGCGCT 1 cut(s) 1410
ApeKI GCWGC 1 cut(s) 1073
ApoI RAATTY 2 cut(s) 1240, 1492
ArsI GACNNNNNNTTYG 2 cut(s) 1242, 1274
Asp700I GAANNNNTTC 2 cut(s) 1503, 1620
AspLEI GCGC 2 cut(s) 688, 1411
AspS9I GGNCC 1 cut(s) 1362
AsuHPI GGTGA 5 cut(s) 64, 404, 643, 707, 1109
AvaI CYCGRG 1 cut(s) 1083
AvaII GGWCC 1 cut(s) 1362
BamHI GGATCC 1 cut(s) 309
BanII GRGCYC 1 cut(s) 1806
BauI CACGAG 1 cut(s) 1308
BbrPI CACGTG 1 cut(s) 127
BbsI GAAGAC 2 cut(s) 219, 273
Bbv12I GWGCWC 1 cut(s) 1806
BbvI GCAGC 1 cut(s) 1060
BccI CCATC 6 cut(s) 313, 461, 724, 970, 1022, 1348
BcgI CGANNNNNNTGC 2 cut(s) 799, 833
BciT130I CCWGG 1 cut(s) 138
BclI TGATCA 1 cut(s) 340
BcoDI GTCTC 5 cut(s) 35, 115, 604, 1615, 1838
BfaI CTAG 2 cut(s) 1344, 1412
BfmI CTRYAG 2 cut(s) 275, 804
BfoI RGCGCY 1 cut(s) 1412
BisI GCNGC 2 cut(s) 1074, 1136
BlsI GCNGC 2 cut(s) 1075, 1137
BmcAI AGTACT 1 cut(s) 1273
Bme1390I CCNGG 1 cut(s) 138
Bme18I GGWCC 1 cut(s) 1362
BmeT110I CYCGRG 1 cut(s) 1083
BmgT120I GGNCC 1 cut(s) 1362
BmiI GGNNCC 1 cut(s) 311
BmrFI CCNGG 1 cut(s) 138
BmsI GCATC 2 cut(s) 176, 282
BpiI GAAGAC 2 cut(s) 219, 273
BpmI CTGGAG 1 cut(s) 1313
Bpu10I CCTNAGC 1 cut(s) 1390
BpuEI CTTGAG 1 cut(s) 509
BsaAI YACGTR 2 cut(s) 127, 410
BsaJI CCNNGG 2 cut(s) 137, 1470
BsaWI WCCGGW 3 cut(s) 33, 49, 1119
BsaXI ACNNNNNCTCC 6 cut(s) 15, 45, 192, 222, 881, 911
Bsc4I CCNNNNNNNGG 1 cut(s) 319
Bse1I ACTGG 1 cut(s) 839
Bse3DI GCAATG 2 cut(s) 695, 1530
BseAI TCCGGA 2 cut(s) 33, 1119
BseBI CCWGG 1 cut(s) 138
BseDI CCNNGG 2 cut(s) 137, 1470
BseGI GGATG 6 cut(s) 223, 297, 499, 561, 945, 1385
BseLI CCNNNNNNNGG 1 cut(s) 319
BseMI GCAATG 2 cut(s) 695, 1530
BseMII CTCAG 2 cut(s) 423, 1635
BseNI ACTGG 1 cut(s) 839
BseRI GAGGAG 3 cut(s) 749, 902, 1459
BseXI GCAGC 1 cut(s) 1060
BsgI GTGCAG 1 cut(s) 883
Bsh1236I CGCG 1 cut(s) 28
Bsh1285I CGRYCG 1 cut(s) 1248
BsiEI CGRYCG 1 cut(s) 1248
BsiHKAI GWGCWC 1 cut(s) 1806
BsiHKCI CYCGRG 1 cut(s) 1083
BsiSI CCGG 3 cut(s) 34, 50, 1120
BslI CCNNNNNNNGG 1 cut(s) 319
BsmAI GTCTC 5 cut(s) 35, 115, 604, 1615, 1838
BsmBI CGTCTC 1 cut(s) 35
BsmI GAATGC 1 cut(s) 1170
BsoBI CYCGRG 1 cut(s) 1083
Bsp1286I GDGCHC 1 cut(s) 1806
Bsp13I TCCGGA 2 cut(s) 33, 1119
Bsp143I GATC 6 cut(s) 309, 340, 1187, 1245, 1371, 1517
BspACI CCGC 6 cut(s) 26, 266, 693, 1135, 1299, 1365
BspCNI CTCAG 2 cut(s) 424, 1636
BspEI TCCGGA 2 cut(s) 33, 1119
BspFNI CGCG 1 cut(s) 28
BspLI GGNNCC 1 cut(s) 311
BspPI GGATC 3 cut(s) 304, 317, 1195
BsrDI GCAATG 2 cut(s) 695, 1530
BsrI ACTGG 1 cut(s) 839
BssECI CCNNGG 2 cut(s) 137, 1470
BssMI GATC 6 cut(s) 309, 340, 1187, 1245, 1371, 1517
BssSI CACGAG 1 cut(s) 1308
Bst2BI CACGAG 1 cut(s) 1308
Bst2UI CCWGG 1 cut(s) 138
Bst4CI ACNGT 9 cut(s) 89, 279, 425, 445, 510, 859, 1051, 1162, 1637
Bst6I CTCTTC 3 cut(s) 1121, 1124, 1509
BstBAI YACGTR 2 cut(s) 127, 410
BstDEI CTNAG 6 cut(s) 105, 432, 990, 1175, 1390, 1644
BstF5I GGATG 6 cut(s) 223, 297, 499, 561, 945, 1385
BstFNI CGCG 1 cut(s) 28
BstH2I RGCGCY 1 cut(s) 1412
BstHHI GCGC 2 cut(s) 688, 1411
BstKTI GATC 6 cut(s) 312, 343, 1190, 1248, 1374, 1520
BstMAI GTCTC 5 cut(s) 35, 115, 604, 1615, 1838
BstMBI GATC 6 cut(s) 309, 340, 1187, 1245, 1371, 1517
BstMCI CGRYCG 1 cut(s) 1248
BstMWI GCNNNNNNNGC 4 cut(s) 263, 716, 1079, 1481
BstNI CCWGG 1 cut(s) 138
BstNSI RCATGY 3 cut(s) 814, 985, 1591
BstSCI CCNGG 1 cut(s) 136
BstSFI CTRYAG 2 cut(s) 275, 804
BstUI CGCG 1 cut(s) 28
BstV1I GCAGC 1 cut(s) 1060
BstV2I GAAGAC 2 cut(s) 219, 273
BstX2I RGATCY 2 cut(s) 309, 1187
BstYI RGATCY 2 cut(s) 309, 1187
BtgZI GCGATG 2 cut(s) 332, 1685
BtsCI GGATG 6 cut(s) 223, 297, 499, 561, 945, 1385
BtsIMutI CAGTG 2 cut(s) 506, 832
CfoI GCGC 2 cut(s) 688, 1411
Cfr13I GGNCC 1 cut(s) 1362
CseI GACGC 2 cut(s) 17, 1322
Csp6I GTAC 2 cut(s) 917, 1272
CviQI GTAC 2 cut(s) 917, 1272
DdeI CTNAG 6 cut(s) 105, 432, 990, 1175, 1390, 1644
DpnI GATC 6 cut(s) 311, 342, 1189, 1247, 1373, 1519
DpnII GATC 6 cut(s) 309, 340, 1187, 1245, 1371, 1517
DraI TTTAAA 1 cut(s) 1479
Eam1104I CTCTTC 3 cut(s) 1121, 1124, 1509
EarI CTCTTC 3 cut(s) 1121, 1124, 1509
Ecl136II GAGCTC 1 cut(s) 1804
Eco24I GRGCYC 1 cut(s) 1806
Eco32I GATATC 1 cut(s) 750
Eco47I GGWCC 1 cut(s) 1362
Eco47III AGCGCT 1 cut(s) 1410
Eco53kI GAGCTC 1 cut(s) 1804
Eco72I CACGTG 1 cut(s) 127
Eco88I CYCGRG 1 cut(s) 1083
EcoICRI GAGCTC 1 cut(s) 1804
EcoRI GAATTC 2 cut(s) 1240, 1492
EcoRII CCWGG 1 cut(s) 136
EcoRV GATATC 1 cut(s) 750
EcoT38I GRGCYC 1 cut(s) 1806
Esp3I CGTCTC 1 cut(s) 35
FbaI TGATCA 1 cut(s) 340
Fnu4HI GCNGC 2 cut(s) 1074, 1136
FokI GGATG 6 cut(s) 230, 304, 506, 568, 952, 1392
FriOI GRGCYC 1 cut(s) 1806
Fsp4HI GCNGC 2 cut(s) 1074, 1136
FspBI CTAG 2 cut(s) 1344, 1412
FspI TGCGCA 1 cut(s) 687
GlaI GCGC 2 cut(s) 687, 1410
GluI GCNGC 2 cut(s) 1074, 1136
GsuI CTGGAG 1 cut(s) 1313
HaeII RGCGCY 1 cut(s) 1412
HapII CCGG 3 cut(s) 34, 50, 1120
HgaI GACGC 2 cut(s) 17, 1322
HhaI GCGC 2 cut(s) 688, 1411
Hin6I GCGC 2 cut(s) 686, 1409
HinP1I GCGC 2 cut(s) 686, 1409
HindIII AAGCTT 2 cut(s) 1482, 1617
HpaII CCGG 3 cut(s) 34, 50, 1120
HphI GGTGA 5 cut(s) 64, 404, 643, 707, 1109
Hpy166II GTNNAC 2 cut(s) 855, 919
Hpy188I TCNGA 8 cut(s) 43, 75, 821, 908, 1009, 1405, 1498, 1615
Hpy8I GTNNAC 2 cut(s) 855, 919
Hpy99I CGWCG 1 cut(s) 79
HpyAV CCTTC 6 cut(s) 868, 903, 1082, 1207, 1433, 1660
HpyCH4III ACNGT 9 cut(s) 89, 279, 425, 445, 510, 859, 1051, 1162, 1637
HpyCH4IV ACGT 3 cut(s) 126, 409, 538
HpyF10VI GCNNNNNNNGC 4 cut(s) 263, 716, 1079, 1481
HpyF3I CTNAG 6 cut(s) 105, 432, 990, 1175, 1390, 1644
HpySE526I ACGT 3 cut(s) 126, 409, 538
HspAI GCGC 2 cut(s) 686, 1409
Kpn2I TCCGGA 2 cut(s) 33, 1119
Ksp22I TGATCA 1 cut(s) 340
Kzo9I GATC 6 cut(s) 309, 340, 1187, 1245, 1371, 1517
LmnI GCTCC 1 cut(s) 1196
Lsp1109I GCAGC 1 cut(s) 1060
LweI GCATC 2 cut(s) 176, 282
MaeI CTAG 2 cut(s) 1344, 1412
MaeII ACGT 3 cut(s) 126, 409, 538
MaeIII GTNAC 7 cut(s) 52, 83, 445, 711, 1051, 1310, 1835
MalI GATC 6 cut(s) 311, 342, 1189, 1247, 1373, 1519
MboI GATC 6 cut(s) 309, 340, 1187, 1245, 1371, 1517
MboII GAAGA 8 cut(s) 219, 273, 1108, 1141, 1496, 1552, 1660, 1815
MfeI CAATTG 1 cut(s) 1334
MflI RGATCY 2 cut(s) 309, 1187
MhlI GDGCHC 1 cut(s) 1806
MluCI AATT 8 cut(s) 364, 698, 795, 1153, 1240, 1334, 1492, 1776
MlyI GAGTC 2 cut(s) 49, 291
MmeI TCCRAC 4 cut(s) 46, 98, 619, 1174
MroI TCCGGA 2 cut(s) 33, 1119
MroXI GAANNNNTTC 2 cut(s) 1503, 1620
MseI TTAA 6 cut(s) 17, 303, 798, 899, 933, 1478
MslI CAYNNNNRTG 1 cut(s) 1590
MspI CCGG 3 cut(s) 34, 50, 1120
MspR9I CCNGG 1 cut(s) 138
MunI CAATTG 1 cut(s) 1334
Mva1269I GAATGC 1 cut(s) 1170
MvaI CCWGG 1 cut(s) 138
MvnI CGCG 1 cut(s) 28
MwoI GCNNNNNNNGC 4 cut(s) 263, 716, 1079, 1481
NdeII GATC 6 cut(s) 309, 340, 1187, 1245, 1371, 1517
NlaIV GGNNCC 1 cut(s) 311
NmeAIII GCCGAG 1 cut(s) 1451
NmuCI GTSAC 3 cut(s) 52, 1051, 1310
NsbI TGCGCA 1 cut(s) 687
NspI RCATGY 3 cut(s) 814, 985, 1591
PciI ACATGT 2 cut(s) 981, 1587
PcsI WCGNNNNNNNCGW 1 cut(s) 776
PctI GAATGC 1 cut(s) 1170
PdmI GAANNNNTTC 2 cut(s) 1503, 1620
PflMI CCANNNNNTGG 1 cut(s) 319
PkrI GCNGC 2 cut(s) 1075, 1137
Ple19I CGATCG 1 cut(s) 1248
PleI GAGTC 2 cut(s) 49, 291
PmaCI CACGTG 1 cut(s) 127
PmlI CACGTG 1 cut(s) 127
PpsI GAGTC 2 cut(s) 49, 291
Ppu21I YACGTR 2 cut(s) 127, 410
PscI ACATGT 2 cut(s) 981, 1587
Psp124BI GAGCTC 1 cut(s) 1806
Psp6I CCWGG 1 cut(s) 136
PspCI CACGTG 1 cut(s) 127
PspGI CCWGG 1 cut(s) 136
PspN4I GGNNCC 1 cut(s) 311
PspPI GGNCC 1 cut(s) 1362
PsuI RGATCY 2 cut(s) 309, 1187
PvuI CGATCG 1 cut(s) 1248
RsaI GTAC 2 cut(s) 918, 1273
RsaNI GTAC 2 cut(s) 917, 1272
RseI CAYNNNNRTG 1 cut(s) 1590
SacI GAGCTC 1 cut(s) 1806
SaqAI TTAA 6 cut(s) 17, 303, 798, 899, 933, 1478
SatI GCNGC 2 cut(s) 1074, 1136
Sau3AI GATC 6 cut(s) 309, 340, 1187, 1245, 1371, 1517
Sau96I GGNCC 1 cut(s) 1362
ScaI AGTACT 1 cut(s) 1273
SchI GAGTC 2 cut(s) 49, 291
ScrFI CCNGG 1 cut(s) 138
SduI GDGCHC 1 cut(s) 1806
SfaNI GCATC 2 cut(s) 176, 282
SfcI CTRYAG 2 cut(s) 275, 804
SinI GGWCC 1 cut(s) 1362
SmiMI CAYNNNNRTG 1 cut(s) 1590
SmlI CTYRAG 1 cut(s) 488
SmoI CTYRAG 1 cut(s) 488
Sse9I AATT 8 cut(s) 364, 698, 795, 1153, 1240, 1334, 1492, 1776
SsiI CCGC 6 cut(s) 26, 266, 693, 1135, 1299, 1365
SspMI CTAG 2 cut(s) 1344, 1412
SstI GAGCTC 1 cut(s) 1806
StyD4I CCNGG 1 cut(s) 136
TaaI ACNGT 9 cut(s) 89, 279, 425, 445, 510, 859, 1051, 1162, 1637
TaiI ACGT 3 cut(s) 129, 412, 541
TasI AATT 8 cut(s) 364, 698, 795, 1153, 1240, 1334, 1492, 1776
TatI WGTACW 2 cut(s) 916, 1271
TauI GCSGC 1 cut(s) 1138
Tru1I TTAA 6 cut(s) 17, 303, 798, 899, 933, 1478
Tru9I TTAA 6 cut(s) 17, 303, 798, 899, 933, 1478
TscAI CASTG 2 cut(s) 513, 839
TseFI GTSAC 3 cut(s) 52, 1051, 1310
TseI GCWGC 1 cut(s) 1073
Tsp45I GTSAC 3 cut(s) 52, 1051, 1310
TspDTI ATGAA 7 cut(s) 608, 1142, 1211, 1347, 1413, 1650, 1824
TspRI CASTG 2 cut(s) 513, 839
Van91I CCANNNNNTGG 1 cut(s) 319
VpaK11BI GGWCC 1 cut(s) 1362
XapI RAATTY 2 cut(s) 1240, 1492
XbaI TCTAGA 1 cut(s) 1343
XceI RCATGY 3 cut(s) 814, 985, 1591
XmnI GAANNNNTTC 2 cut(s) 1503, 1620
XspI CTAG 2 cut(s) 1344, 1412
ZrmI AGTACT 1 cut(s) 1273
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.