AT5G43790

pentatricopeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0015846
Physical Location & Seq
Reverse (-)
17591929 .. 17593666
1738 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G43790.1

Sequence Viewer

Length: 1383 bp
ATGACATCTCCAAGCACAAGCAAGAATCATCGATGCTTAAACCTAATCTCAAAATGCAAATCCTTACAAAACCTCAAACAAATCCATGCCCAAATCATCACAATCGGTCTCTCTCACCACACATATCCTCTAAGTAAGCTCCTTCACTTATCCTCCACCGTCTGCTTATCCTACGCACTCTCTATCTTACGCCAAATCCCTAATCCTTCCGTCTTCCTCTACAACACTCTCATCTCTTCCATCGTCTCCAATCACAATTCCACTCAAACCCATCTCGCGTTTTCTCTCTACGATCAGATTTTGAGCTCAAGATCCAATTTTGTCAGACCCAATGAATTTACGTATCCTTCTCTCTTCAAAGCCTCAGGCTTTGACGCTCAATGGCATCGCCATGGGAGGGCTCTTCATGCCCACGTCTTGAAATTTCTCGAACCGGTGAATCATGATCGGTTTGTGCAAGCTGCTTTAGTTGGGTTTTACGCTAATTGTGGTAAATTGAGAGAAGCTAGGTCTTTGTTTGAGAGAATTAGGGAACCTGATTTGGCTACTTGGAACACTCTTCTTGCTGCTTACGCTAATTCCGAAGAAATTGATAGCGATGAAGAGGTTTTGTTGTTGTTTATGAGAATGCAAGTAAGACCTAACGAGCTTTCTCTTGTAGCTTTGATTAAATCTTGTGCGAATTTAGGTGAATTTGTGAGAGGTGTTTGGGCTCATGTGTATGTCTTGAAGAATAATCTGACCCTGAACCAGTTTGTGGGAACTTCTCTGATCGATCTTTACTCGAAATGCGGATGTTTGAGTTTCGCACGCAAAGTGTTCGATGAAATGTCTCAGAGAGACGTATCGTGTTACAATGCAATGATTCGTGGTTTAGCAGTTCACGGGTTTGGTCAAGAAGGTATTGAATTGTACAAGAGCTTGATCTCTCAAGGATTAGTCCCGGACAGTGCAACTTTCGTGGTGACGATATCAGCATGTTCGCACTCGGGTCTAGTCGACGAAGGTCTCCAAATATTTAACTCAATGAAAGCGGTTTACGGGATCGAGCCTAAAGTTGAGCATTACGGATGTTTAGTTGATCTACTAGGCCGATCCGGGAGGTTAGAAGAAGCGGAAGAATGCATCAAGAAGATGCCGGTGAAGCCGAATGCGACACTATGGAGATCGTTTCTAGGGTCATCTCAAACACATGGTGACTTTGAGAGGGGTGAGATTGCGCTAAAGCATTTGTTGGGGTTAGAATTCGAAAACAGCGGAAATTATGTGCTCTTGTCGAATATTTATGCCGGAGTTAACCGTTGGACTGACGTAGAGAAGACCCGGGAACTTATGAAAGACCACCGTGTCAATAAATCTCCGGGGATTAGTACTCTTAATTAA

Protein Analysis

460

Amino Acids

51.64

Weight (kDa)

8.4

Isoelectric Point (pI)

41.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 280 - 328 7e-07 PPR repeat family
E_motif PF20431 398 - 459 2.4e-21 E motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0015846)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G43790
fragaria_vesca FvH4_2g25230
malus_domestica MD03G1282600.v1.1 MD11G1303700.v1.1
prunus_persica Prupe.8G257000_v2.0.a1
pyrus_communis pycom11g26530
rosa_chinensis RchiOBHm_Chr6g0293351
rosa_laevigata RLG00000011953
rosa_multiflora Rmu_sc0006269.1_g000030
rosa_roxburghii Rroxscaffold_7G00174230
rosa_rugosa Rorug06G0234800
rosa_samantha Rh6AG347700 Rh6BG355300 Rh6DG348500
rosa_wichuraiana Rw6G030250

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 1346
AccB7I CCANNNNNTGG 1 cut(s) 757
AccI GTMKAC 1 cut(s) 999
AccII CGCG 1 cut(s) 278
AciI CCGC 4 cut(s) 792, 1034, 1115, 1257
AclWI GGATC 3 cut(s) 306, 1052, 1089
AcsI RAATTY 5 cut(s) 335, 422, 682, 692, 1244
AdeI CACNNNGTG 1 cut(s) 1196
AfaI GTAC 2 cut(s) 914, 1372
AfiI CCNNNNNNNGG 2 cut(s) 397, 757
AgeI ACCGGT 1 cut(s) 433
AgsI TTSAA 4 cut(s) 358, 421, 730, 908
AjiI CACGTC 1 cut(s) 415
AluBI AGCT 7 cut(s) 139, 306, 461, 506, 649, 662, 921
AluI AGCT 7 cut(s) 139, 306, 461, 506, 649, 662, 921
Alw21I GWGCWC 2 cut(s) 308, 1272
Alw26I GTCTC 5 cut(s) 113, 250, 834, 837, 1013
AlwI GGATC 3 cut(s) 306, 1052, 1089
Ama87I CYCGRG 2 cut(s) 988, 1323
AoxI GGCC 1 cut(s) 1090
ApeKI GCWGC 2 cut(s) 461, 566
ApoI RAATTY 5 cut(s) 335, 422, 682, 692, 1244
AsiGI ACCGGT 1 cut(s) 433
AspLEI GCGC 1 cut(s) 1222
AsuC2I CCSGG 5 cut(s) 944, 1099, 1324, 1325, 1362
AsuHPI GGTGA 7 cut(s) 107, 448, 701, 976, 1153, 1208, 1223
AsuII TTCGAA 1 cut(s) 1248
AvaI CYCGRG 2 cut(s) 988, 1323
AxyI CCTNAGG 1 cut(s) 364
BanII GRGCYC 3 cut(s) 308, 403, 715
BbsI GAAGAC 2 cut(s) 205, 1325
Bbv12I GWGCWC 2 cut(s) 308, 1272
BbvI GCAGC 2 cut(s) 448, 553
BccI CCATC 2 cut(s) 248, 279
BcgI CGANNNNNNTGC 2 cut(s) 802, 836
BciVI GTATCC 1 cut(s) 354
BcnI CCSGG 5 cut(s) 944, 1099, 1324, 1325, 1362
BcoDI GTCTC 5 cut(s) 113, 250, 834, 837, 1013
BfaI CTAG 4 cut(s) 507, 995, 1088, 1175
BfuI GTATCC 1 cut(s) 354
BisI GCNGC 2 cut(s) 462, 567
BlsI GCNGC 2 cut(s) 463, 568
BmcAI AGTACT 1 cut(s) 1372
Bme1390I CCNGG 5 cut(s) 944, 1099, 1324, 1325, 1362
BmeT110I CYCGRG 2 cut(s) 988, 1323
BmgBI CACGTC 1 cut(s) 415
BmiI GGNNCC 1 cut(s) 534
BmrFI CCNGG 5 cut(s) 944, 1099, 1324, 1325, 1362
BmsI GCATC 4 cut(s) 23, 394, 1125, 1134
BoxI GACNNNNGTC 1 cut(s) 1005
BpiI GAAGAC 2 cut(s) 205, 1325
Bpu14I TTCGAA 1 cut(s) 1248
BpuEI CTTGAG 2 cut(s) 292, 915
BpuMI CCSGG 5 cut(s) 944, 1099, 1324, 1325, 1362
Bsa29I ATCGAT 2 cut(s) 31, 774
BsaAI YACGTR 1 cut(s) 342
BsaI GGTCTC 2 cut(s) 113, 1013
BsaJI CCNNGG 3 cut(s) 391, 1323, 1361
BsaWI WCCGGW 1 cut(s) 433
BsaXI ACNNNNNCTCC 2 cut(s) 137, 167
Bsc4I CCNNNNNNNGG 2 cut(s) 397, 757
Bse118I RCCGGY 2 cut(s) 433, 1138
Bse1I ACTGG 1 cut(s) 751
Bse21I CCTNAGG 1 cut(s) 364
Bse3DI GCAATG 1 cut(s) 867
BseCI ATCGAT 2 cut(s) 31, 774
BseDI CCNNGG 3 cut(s) 391, 1323, 1361
BseGI GGATG 2 cut(s) 800, 1076
BseLI CCNNNNNNNGG 2 cut(s) 397, 757
BseMI GCAATG 1 cut(s) 867
BseMII CTCAG 2 cut(s) 378, 848
BseNI ACTGG 1 cut(s) 751
BseXI GCAGC 2 cut(s) 448, 553
Bsh1236I CGCG 1 cut(s) 278
BshFI GGCC 1 cut(s) 1092
BshTI ACCGGT 1 cut(s) 433
BshVI ATCGAT 2 cut(s) 31, 774
BsiHKAI GWGCWC 2 cut(s) 308, 1272
BsiHKCI CYCGRG 2 cut(s) 988, 1323
BsiSI CCGG 7 cut(s) 434, 944, 1098, 1139, 1290, 1324, 1361
BslFI GGGAC 1 cut(s) 926
BslI CCNNNNNNNGG 2 cut(s) 397, 757
BsmAI GTCTC 5 cut(s) 113, 250, 834, 837, 1013
BsmBI CGTCTC 2 cut(s) 250, 834
BsmFI GGGAC 1 cut(s) 926
BsmI GAATGC 3 cut(s) 633, 1127, 1156
BsnI GGCC 1 cut(s) 1092
Bso31I GGTCTC 2 cut(s) 113, 1013
BsoBI CYCGRG 2 cut(s) 988, 1323
Bsp119I TTCGAA 1 cut(s) 1248
Bsp1286I GDGCHC 4 cut(s) 308, 403, 715, 1272
Bsp1407I TGTACA 1 cut(s) 912
Bsp19I CCATGG 1 cut(s) 391
BspACI CCGC 4 cut(s) 792, 1034, 1115, 1257
BspANI GGCC 1 cut(s) 1092
BspCNI CTCAG 2 cut(s) 377, 847
BspDI ATCGAT 2 cut(s) 31, 774
BspFNI CGCG 1 cut(s) 278
BspHI TCATGA 1 cut(s) 442
BspLI GGNNCC 1 cut(s) 534
BspPI GGATC 3 cut(s) 306, 1052, 1089
BspQI GCTCTTC 1 cut(s) 408
BspT104I TTCGAA 1 cut(s) 1248
BspTNI GGTCTC 2 cut(s) 113, 1013
BsrDI GCAATG 1 cut(s) 867
BsrFI RCCGGY 2 cut(s) 433, 1138
BsrGI TGTACA 1 cut(s) 912
BsrI ACTGG 1 cut(s) 751
BssAI RCCGGY 2 cut(s) 433, 1138
BssECI CCNNGG 3 cut(s) 391, 1323, 1361
BssT1I CCWWGG 1 cut(s) 391
Bst4CI ACNGT 4 cut(s) 160, 950, 1301, 1346
Bst6I CTCTTC 5 cut(s) 241, 359, 408, 564, 597
BstAUI TGTACA 1 cut(s) 912
BstBAI YACGTR 1 cut(s) 342
BstBI TTCGAA 1 cut(s) 1248
BstC8I GCNNGC 2 cut(s) 459, 811
BstDEI CTNAG 3 cut(s) 131, 364, 834
BstDSI CCRYGG 1 cut(s) 391
BstF5I GGATG 2 cut(s) 800, 1076
BstFNI CGCG 1 cut(s) 278
BstHHI GCGC 1 cut(s) 1222
BstMAI GTCTC 5 cut(s) 113, 250, 834, 837, 1013
BstMWI GCNNNNNNNGC 3 cut(s) 407, 572, 1144
BstNSI RCATGY 1 cut(s) 981
BstPAI GACNNNNGTC 1 cut(s) 1005
BstSCI CCNGG 5 cut(s) 942, 1097, 1322, 1323, 1360
BstSNI TACGTA 1 cut(s) 342
BstUI CGCG 1 cut(s) 278
BstV1I GCAGC 2 cut(s) 448, 553
BstV2I GAAGAC 2 cut(s) 205, 1325
BstX2I RGATCY 1 cut(s) 311
BstYI RGATCY 1 cut(s) 311
Bsu15I ATCGAT 2 cut(s) 31, 774
Bsu36I CCTNAGG 1 cut(s) 364
BsuI GTATCC 1 cut(s) 354
BsuRI GGCC 1 cut(s) 1092
BsuTUI ATCGAT 2 cut(s) 31, 774
BtgI CCRYGG 1 cut(s) 391
BtgZI GCGATG 2 cut(s) 371, 612
BtrI CACGTC 1 cut(s) 415
BtsCI GGATG 2 cut(s) 800, 1076
BtsIMutI CAGTG 1 cut(s) 955
Cac8I GCNNGC 2 cut(s) 459, 811
CciI TCATGA 1 cut(s) 442
CfoI GCGC 1 cut(s) 1222
Cfr10I RCCGGY 2 cut(s) 433, 1138
Cfr9I CCCGGG 1 cut(s) 1323
ClaI ATCGAT 2 cut(s) 31, 774
CseI GACGC 1 cut(s) 383
Csp6I GTAC 2 cut(s) 913, 1371
CspAI ACCGGT 1 cut(s) 433
CspCI CAANNNNNGTGG 2 cut(s) 942, 977
CviAII CATG 7 cut(s) 86, 392, 407, 443, 716, 978, 1193
CviQI GTAC 2 cut(s) 913, 1371
DdeI CTNAG 3 cut(s) 131, 364, 834
DraIII CACNNNGTG 1 cut(s) 1196
DrdI GACNNNNNNGTC 1 cut(s) 1346
DseDI GACNNNNNNGTC 1 cut(s) 1346
Eam1104I CTCTTC 5 cut(s) 241, 359, 408, 564, 597
EarI CTCTTC 5 cut(s) 241, 359, 408, 564, 597
Ecl136II GAGCTC 1 cut(s) 306
Eco105I TACGTA 1 cut(s) 342
Eco130I CCWWGG 1 cut(s) 391
Eco24I GRGCYC 3 cut(s) 308, 403, 715
Eco31I GGTCTC 2 cut(s) 113, 1013
Eco32I GATATC 1 cut(s) 972
Eco53kI GAGCTC 1 cut(s) 306
Eco81I CCTNAGG 1 cut(s) 364
Eco88I CYCGRG 2 cut(s) 988, 1323
EcoICRI GAGCTC 1 cut(s) 306
EcoRI GAATTC 1 cut(s) 1244
EcoRV GATATC 1 cut(s) 972
EcoT14I CCWWGG 1 cut(s) 391
EcoT22I ATGCAT 1 cut(s) 1127
EcoT38I GRGCYC 3 cut(s) 308, 403, 715
ErhI CCWWGG 1 cut(s) 391
Esp3I CGTCTC 2 cut(s) 250, 834
FaeI CATG 7 cut(s) 89, 395, 410, 446, 719, 981, 1196
FaqI GGGAC 1 cut(s) 926
FatI CATG 7 cut(s) 85, 391, 406, 442, 715, 977, 1192
FblI GTMKAC 1 cut(s) 999
Fnu4HI GCNGC 2 cut(s) 462, 567
FokI GGATG 2 cut(s) 807, 1083
FriOI GRGCYC 3 cut(s) 308, 403, 715
Fsp4HI GCNGC 2 cut(s) 462, 567
FspBI CTAG 4 cut(s) 507, 995, 1088, 1175
GlaI GCGC 1 cut(s) 1221
GluI GCNGC 2 cut(s) 462, 567
HaeIII GGCC 1 cut(s) 1092
HapII CCGG 7 cut(s) 434, 944, 1098, 1139, 1290, 1324, 1361
HgaI GACGC 1 cut(s) 383
HhaI GCGC 1 cut(s) 1222
Hin1II CATG 7 cut(s) 89, 395, 410, 446, 719, 981, 1196
Hin6I GCGC 1 cut(s) 1220
HinP1I GCGC 1 cut(s) 1220
HincII GTYRAC 2 cut(s) 1000, 1297
HindII GTYRAC 2 cut(s) 1000, 1297
HinfI GANTC 3 cut(s) 25, 439, 865
HpaI GTTAAC 1 cut(s) 1297
HpaII CCGG 7 cut(s) 434, 944, 1098, 1139, 1290, 1324, 1361
HphI GGTGA 7 cut(s) 107, 448, 701, 976, 1153, 1208, 1223
Hpy166II GTNNAC 4 cut(s) 883, 1000, 1039, 1297
Hpy188I TCNGA 6 cut(s) 297, 326, 583, 741, 771, 837
Hpy188III TCNNGA 7 cut(s) 309, 418, 428, 443, 727, 896, 1129
Hpy8I GTNNAC 4 cut(s) 883, 1000, 1039, 1297
Hpy99I CGWCG 1 cut(s) 1004
HpyAV CCTTC 5 cut(s) 152, 216, 357, 893, 998
HpyCH4III ACNGT 4 cut(s) 160, 950, 1301, 1346
HpyCH4IV ACGT 4 cut(s) 341, 414, 843, 1311
HpyCH4V TGCA 6 cut(s) 57, 457, 631, 860, 953, 1125
HpyF10VI GCNNNNNNNGC 3 cut(s) 407, 572, 1144
HpyF3I CTNAG 3 cut(s) 131, 364, 834
HpySE526I ACGT 4 cut(s) 341, 414, 843, 1311
Hsp92II CATG 7 cut(s) 89, 395, 410, 446, 719, 981, 1196
HspAI GCGC 1 cut(s) 1220
KspAI GTTAAC 1 cut(s) 1297
LguI GCTCTTC 1 cut(s) 408
LmnI GCTCC 1 cut(s) 144
Lsp1109I GCAGC 2 cut(s) 448, 553
LweI GCATC 4 cut(s) 23, 394, 1125, 1134
MaeI CTAG 4 cut(s) 507, 995, 1088, 1175
MaeII ACGT 4 cut(s) 341, 414, 843, 1311
MaeIII GTNAC 3 cut(s) 851, 964, 1196
MflI RGATCY 1 cut(s) 311
MhlI GDGCHC 4 cut(s) 308, 403, 715, 1272
MmeI TCCRAC 1 cut(s) 1283
Mph1103I ATGCAT 1 cut(s) 1127
MseI TTAA 6 cut(s) 38, 669, 1020, 1296, 1377, 1381
MslI CAYNNNNRTG 2 cut(s) 390, 720
MspA1I CMGCKG 1 cut(s) 1257
MspI CCGG 7 cut(s) 434, 944, 1098, 1139, 1290, 1324, 1361
MspR9I CCNGG 5 cut(s) 944, 1099, 1324, 1325, 1362
Mva1269I GAATGC 3 cut(s) 633, 1127, 1156
MvnI CGCG 1 cut(s) 278
MwoI GCNNNNNNNGC 3 cut(s) 407, 572, 1144
NciI CCSGG 5 cut(s) 944, 1099, 1324, 1325, 1362
NcoI CCATGG 1 cut(s) 391
NlaIII CATG 7 cut(s) 89, 395, 410, 446, 719, 981, 1196
NlaIV GGNNCC 1 cut(s) 534
NmuCI GTSAC 2 cut(s) 964, 1196
NsiI ATGCAT 1 cut(s) 1127
NspI RCATGY 1 cut(s) 981
NspV TTCGAA 1 cut(s) 1248
PacI TTAATTAA 1 cut(s) 1381
PagI TCATGA 1 cut(s) 442
PciSI GCTCTTC 1 cut(s) 408
PcsI WCGNNNNNNNCGW 1 cut(s) 579
PctI GAATGC 3 cut(s) 633, 1127, 1156
PfeI GAWTC 3 cut(s) 25, 439, 865
PflMI CCANNNNNTGG 1 cut(s) 757
PfoI TCCNGGA 2 cut(s) 942, 1097
PinAI ACCGGT 1 cut(s) 433
PkrI GCNGC 2 cut(s) 463, 568
Ppu21I YACGTR 1 cut(s) 342
PshAI GACNNNNGTC 1 cut(s) 1005
Psp124BI GAGCTC 1 cut(s) 308
PspN4I GGNNCC 1 cut(s) 534
PsuI RGATCY 1 cut(s) 311
RsaI GTAC 2 cut(s) 914, 1372
RsaNI GTAC 2 cut(s) 913, 1371
RseI CAYNNNNRTG 2 cut(s) 390, 720
SacI GAGCTC 1 cut(s) 308
SalI GTCGAC 1 cut(s) 998
SapI GCTCTTC 1 cut(s) 408
SaqAI TTAA 6 cut(s) 38, 669, 1020, 1296, 1377, 1381
SatI GCNGC 2 cut(s) 462, 567
ScaI AGTACT 1 cut(s) 1372
ScrFI CCNGG 5 cut(s) 944, 1099, 1324, 1325, 1362
SduI GDGCHC 4 cut(s) 308, 403, 715, 1272
SfaNI GCATC 4 cut(s) 23, 394, 1125, 1134
SfuI TTCGAA 1 cut(s) 1248
SmaI CCCGGG 1 cut(s) 1325
SmiMI CAYNNNNRTG 2 cut(s) 390, 720
SmlI CTYRAG 2 cut(s) 307, 930
SmoI CTYRAG 2 cut(s) 307, 930
SnaBI TACGTA 1 cut(s) 342
SsiI CCGC 4 cut(s) 792, 1034, 1115, 1257
SspI AATATT 2 cut(s) 1017, 1282
SspMI CTAG 4 cut(s) 507, 995, 1088, 1175
SstI GAGCTC 1 cut(s) 308
StyD4I CCNGG 5 cut(s) 942, 1097, 1322, 1323, 1360
StyI CCWWGG 1 cut(s) 391
TaaI ACNGT 4 cut(s) 160, 950, 1301, 1346
TaiI ACGT 4 cut(s) 344, 417, 846, 1314
TaqI TCGA 9 cut(s) 31, 429, 774, 785, 822, 999, 1047, 1248, 1277
TaqII GACCGA 1 cut(s) 95
TatI WGTACW 2 cut(s) 912, 1370
TfiI GAWTC 3 cut(s) 25, 439, 865
Tru1I TTAA 6 cut(s) 38, 669, 1020, 1296, 1377, 1381
Tru9I TTAA 6 cut(s) 38, 669, 1020, 1296, 1377, 1381
TscAI CASTG 1 cut(s) 955
TseFI GTSAC 2 cut(s) 964, 1196
TseI GCWGC 2 cut(s) 461, 566
Tsp45I GTSAC 2 cut(s) 964, 1196
TspDTI ATGAA 6 cut(s) 348, 395, 615, 840, 1043, 1349
TspGWI ACGGA 2 cut(s) 199, 1083
TspMI CCCGGG 1 cut(s) 1323
TspRI CASTG 1 cut(s) 955
Van91I CCANNNNNTGG 1 cut(s) 757
XapI RAATTY 5 cut(s) 335, 422, 682, 692, 1244
XceI RCATGY 1 cut(s) 981
XmaI CCCGGG 1 cut(s) 1323
XmiI GTMKAC 1 cut(s) 999
XspI CTAG 4 cut(s) 507, 995, 1088, 1175
ZrmI AGTACT 1 cut(s) 1372
Zsp2I ATGCAT 1 cut(s) 1127
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.