AT1G28690

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
1
OG0016088
Physical Location & Seq
Reverse (-)
10080042 .. 10081604
1563 bp
Loading structure...
UTR
Exon/CDS
Intron
AT1G28690.1

Sequence Viewer

Length: 1563 bp
ATGAGAATCTTCAGATTCACGTCAATCTCACCGCGGATTTTGCCGTCGAATCATTACTCAACATTCCCGTTGAAACAAAACGTGTCTTCTCTCTCACCGGCGAAATACATTGCGGGAGCTTTACAAGAACATATCAATTCTCCGGCCCCAAAAGCTGGTAAGAAGATACACGCAGATATCATCAAAACTGGGTTTCAACCAGATTTGAATATATCCATCAAACTACTCATTCTTCATTTAAAATGCGGTTGCTTGAGTTATGCACGCCAAGTGTTCGACGAATTACCCAAGCCAACATTATCGGCTTACAACTACATGATTAGTGGGTACTTGAAGCATGGATTGGTAAAGGAATTACTTCTTCTAGTTCAACGGATGTCATACTCTGGGGAAAAGGCAGATGGGTACACGCTTTCCATGGTTCTAAAGGCTTCTAATAGTCGTGGCTCGACTATGATACTGCCGCGTAGCTTATGTAGGTTGGTCCATGCCCGGATTATAAAATGTGATGTTGAGCTAGATGATGTGTTGATTACTGCACTTGTTGATACTTATGTGAAGAGTGGGAAGTTGGAGTCTGCAAGGACTGTGTTTGAAACAATGAAAGATGAGAATGTTGTGTGTTGTACATCAATGATCTCAGGTTACATGAATCAAGGTTTTGTAGAGGATGCGGAAGAGATTTTCAATACTACCAAAGTGAAGGATATTGTAGTTTACAATGCTATGGTGGAAGGTTTCAGCAGATCAGGTGAAACTGCTAAGAGATCAGTTGACATGTATATTTCGATGCAACGAGCTGGTTTCCATCCGAATATTTCAACTTTCGCTAGCGTGATTGGAGCGTGTTCGGTTTTGACGTCCCATGAAGTTGGTCAGCAAGTGCACGCTCAGATTATGAAGAGTGGAGTTTACACGCATATCAAAATGGGGAGCTCTTTGTTAGACATGTATGCCAAATGCGGAGGGATCAATGATGCAAGAAGAGTCTTTGACCAAATGCAAGAGAAAAACGTATTTTCGTGGACTTCGATGATTGATGGATATGGAAAGAATGGAAACCCTGAGGAAGCACTCGAACTCTTCACTAGGATGAAGGAATTCCGTATAGAACCCAATTATGTAACCTTTCTTGGTGCTCTCTCTGCTTGTTCACATTCTGGTTTAGTCGATAAAGGTTATGAGATCTTTGAGAGCATGCAGAGAGATTATTCCATGAAACCAAAGATGGAACACTATGCTTGCATAGTTGATCTCATGGGACGAGCTGGAGATTTGAATAAAGCTTTCGAATTTGCTAGGGCGATGCCGGAAAGGCCTGACTCAGATATTTGGGCAGCTCTTCTCAGTTCTTGTAATTTGCATGGTAATGTTGAACTCGCAAGCATAGCTGCGAGTGAGCTTTTCAAACTGAATGCTGATAAAAGACCTGGAGCTTATTTAGCTTTATCCAATGTCTACGCTTCTAATGATAAATGGGACAATGTGAGCAAGATCCGAGAAGTGATGAAAAGAAGAAGGATATCTAAAACTATTGGTCGTAGTTGGACCAGCGAAGATTGA

Protein Analysis

520

Amino Acids

58.14

Weight (kDa)

8.75

Isoelectric Point (pI)

42.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 235 - 283 1.2e-06 PPR repeat family
PPR_long PF17177 324 - 432 4.8e-06 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 337 - 385 9.8e-12 PPR repeat family
PPR_1 PF12854 338 - 366 6.6e-07 PPR repeat
PPR_3 PF13812 338 - 384 1.2e-06 Pentatricopeptide repeat domain
PPR PF01535 340 - 369 6.4e-11 PPR repeat
E_motif PF20431 455 - 516 1.6e-12 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: OG0016088)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G28690
fragaria_vesca FvH4_5g29510
malus_domestica MD10G1283700.v1.1
prunus_persica Prupe.4G058100_v2.0.a1
pyrus_communis pycom05g28160 pycom10g23660
rosa_chinensis RchiOBHm_Chr5g0010161
rosa_laevigata RLG00000031727
rosa_roxburghii Rroxscaffold_1G00066030
rosa_rugosa Rorug04G0449500
rosa_samantha Rh5AG080400 Rh5BG074900 Rh5CG088700 Rh5DG075900
rosa_wichuraiana Rw5G007440

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 500
AatII GACGTC 1 cut(s) 863
AccB7I CCANNNNNTGG 1 cut(s) 155
AccI GTMKAC 1 cut(s) 1458
AccII CGCG 2 cut(s) 34, 466
AciI CCGC 7 cut(s) 32, 34, 113, 246, 464, 674, 963
AclWI GGATC 2 cut(s) 977, 1489
AcsI RAATTY 2 cut(s) 1100, 1292
AcyI GRCGYC 1 cut(s) 860
AfaI GTAC 3 cut(s) 329, 407, 628
AfiI CCNNNNNNNGG 1 cut(s) 155
AflIII ACRYGT 3 cut(s) 81, 777, 948
AjiI CACGTC 1 cut(s) 21
AjnI CCWGG 1 cut(s) 1429
AjuI GAANNNNNNNTTGG 2 cut(s) 326, 358
Alw21I GWGCWC 3 cut(s) 888, 938, 1141
Alw44I GTGCAC 1 cut(s) 884
AlwI GGATC 2 cut(s) 977, 1489
AoxI GGCC 2 cut(s) 144, 1316
ApaLI GTGCAC 1 cut(s) 884
ApeKI GCWGC 2 cut(s) 1337, 1391
ApoI RAATTY 2 cut(s) 1100, 1292
Asp700I GAANNNNTTC 2 cut(s) 357, 1100
AspS9I GGNCC 3 cut(s) 145, 484, 1548
AsuC2I CCSGG 1 cut(s) 493
AsuHPI GGTGA 3 cut(s) 21, 87, 764
AsuII TTCGAA 1 cut(s) 1290
AsuNHI GCTAGC 1 cut(s) 830
AvaII GGWCC 2 cut(s) 484, 1548
AxyI CCTNAGG 1 cut(s) 1065
BaeGI GKGCMC 1 cut(s) 888
BaeI ACNNNNGTAYC 2 cut(s) 540, 573
BanII GRGCYC 1 cut(s) 938
BbsI GAAGAC 1 cut(s) 78
Bbv12I GWGCWC 3 cut(s) 888, 938, 1141
BbvI GCAGC 2 cut(s) 1349, 1378
BccI CCATC 5 cut(s) 224, 395, 816, 1034, 1222
BceAI ACGGC 1 cut(s) 28
BciT130I CCWGG 1 cut(s) 1431
BcnI CCSGG 1 cut(s) 493
BfaI CTAG 5 cut(s) 365, 518, 831, 1089, 1299
BglI GCCNNNNNGGC 1 cut(s) 1315
BglII AGATCT 1 cut(s) 1185
BisI GCNGC 3 cut(s) 464, 1338, 1392
BlsI GCNGC 3 cut(s) 465, 1339, 1393
Bme1390I CCNGG 2 cut(s) 493, 1431
Bme18I GGWCC 2 cut(s) 484, 1548
BmgBI CACGTC 1 cut(s) 21
BmgT120I GGNCC 3 cut(s) 145, 484, 1548
BmiI GGNNCC 1 cut(s) 147
BmrFI CCNGG 2 cut(s) 493, 1431
BmrI ACTGGG 1 cut(s) 198
BmsI GCATC 4 cut(s) 661, 780, 967, 1296
BmtI GCTAGC 1 cut(s) 834
BmuI ACTGGG 1 cut(s) 198
BpiI GAAGAC 1 cut(s) 78
BpmI CTGGAG 2 cut(s) 1290, 1452
Bpu14I TTCGAA 1 cut(s) 1290
BpuEI CTTGAG 1 cut(s) 274
BpuMI CCSGG 1 cut(s) 493
BsaHI GRCGYC 1 cut(s) 860
BsaJI CCNNGG 2 cut(s) 32, 417
Bsc4I CCNNNNNNNGG 1 cut(s) 155
Bse118I RCCGGY 1 cut(s) 97
Bse1I ACTGG 1 cut(s) 193
Bse21I CCTNAGG 1 cut(s) 1065
Bse3DI GCAATG 1 cut(s) 108
BseBI CCWGG 1 cut(s) 1431
BseDI CCNNGG 2 cut(s) 32, 417
BseGI GGATG 4 cut(s) 381, 676, 808, 1098
BseLI CCNNNNNNNGG 1 cut(s) 155
BseMI GCAATG 1 cut(s) 108
BseMII CTCAG 5 cut(s) 654, 905, 1056, 1338, 1360
BseNI ACTGG 1 cut(s) 193
BseSI GKGCMC 1 cut(s) 888
BseXI GCAGC 2 cut(s) 1349, 1378
BsgI GTGCAG 1 cut(s) 522
Bsh1236I CGCG 2 cut(s) 34, 466
BshFI GGCC 2 cut(s) 146, 1318
BsiHKAI GWGCWC 3 cut(s) 888, 938, 1141
BsiSI CCGG 4 cut(s) 98, 143, 493, 1310
BslFI GGGAC 3 cut(s) 847, 1275, 1493
BslI CCNNNNNNNGG 1 cut(s) 155
BsmFI GGGAC 3 cut(s) 847, 1275, 1493
BsmI GAATGC 1 cut(s) 1420
BsnI GGCC 2 cut(s) 146, 1318
Bsp119I TTCGAA 1 cut(s) 1290
Bsp1286I GDGCHC 3 cut(s) 888, 938, 1141
Bsp1407I TGTACA 1 cut(s) 626
Bsp143I GATC 7 cut(s) 636, 746, 767, 969, 1185, 1252, 1494
Bsp19I CCATGG 1 cut(s) 417
BspACI CCGC 7 cut(s) 32, 34, 113, 246, 464, 674, 963
BspANI GGCC 2 cut(s) 146, 1318
BspCNI CTCAG 5 cut(s) 653, 904, 1057, 1337, 1359
BspFNI CGCG 2 cut(s) 34, 466
BspLI GGNNCC 1 cut(s) 147
BspOI GCTAGC 1 cut(s) 834
BspPI GGATC 2 cut(s) 977, 1489
BspQI GCTCTTC 1 cut(s) 1347
BspT104I TTCGAA 1 cut(s) 1290
BsrDI GCAATG 1 cut(s) 108
BsrFI RCCGGY 1 cut(s) 97
BsrGI TGTACA 1 cut(s) 626
BsrI ACTGG 1 cut(s) 193
BssAI RCCGGY 1 cut(s) 97
BssECI CCNNGG 2 cut(s) 32, 417
BssMI GATC 7 cut(s) 636, 746, 767, 969, 1185, 1252, 1494
BssNI GRCGYC 1 cut(s) 860
BssT1I CCWWGG 1 cut(s) 417
Bst2UI CCWGG 1 cut(s) 1431
Bst4CI ACNGT 1 cut(s) 589
Bst6I CTCTTC 6 cut(s) 554, 672, 896, 979, 1088, 1347
BstACI GRCGYC 1 cut(s) 860
BstAUI TGTACA 1 cut(s) 626
BstBI TTCGAA 1 cut(s) 1290
BstC8I GCNNGC 6 cut(s) 265, 832, 888, 1199, 1243, 1384
BstDEI CTNAG 6 cut(s) 640, 762, 891, 1065, 1324, 1346
BstDSI CCRYGG 2 cut(s) 32, 417
BstF5I GGATG 4 cut(s) 381, 676, 808, 1098
BstFNI CGCG 2 cut(s) 34, 466
BstKTI GATC 7 cut(s) 639, 749, 770, 972, 1188, 1255, 1497
BstMBI GATC 7 cut(s) 636, 746, 767, 969, 1185, 1252, 1494
BstMWI GCNNNNNNNGC 6 cut(s) 40, 152, 1145, 1315, 1388, 1442
BstNI CCWGG 1 cut(s) 1431
BstNSI RCATGY 3 cut(s) 781, 952, 1201
BstSCI CCNGG 2 cut(s) 491, 1429
BstSLI GKGCMC 1 cut(s) 888
BstUI CGCG 2 cut(s) 34, 466
BstV1I GCAGC 2 cut(s) 1349, 1378
BstV2I GAAGAC 1 cut(s) 78
BstX2I RGATCY 2 cut(s) 1185, 1494
BstXI CCANNNNNNTGG 1 cut(s) 872
BstYI RGATCY 2 cut(s) 1185, 1494
Bsu36I CCTNAGG 1 cut(s) 1065
BsuRI GGCC 2 cut(s) 146, 1318
BtgI CCRYGG 2 cut(s) 32, 417
BtgZI GCGATG 1 cut(s) 1319
BtrI CACGTC 1 cut(s) 21
BtsCI GGATG 4 cut(s) 381, 676, 808, 1098
Cac8I GCNNGC 6 cut(s) 265, 832, 888, 1199, 1243, 1384
Cfr10I RCCGGY 1 cut(s) 97
Cfr13I GGNCC 3 cut(s) 145, 484, 1548
Cfr42I CCGCGG 1 cut(s) 35
Csp6I GTAC 3 cut(s) 328, 406, 627
CviQI GTAC 3 cut(s) 328, 406, 627
DdeI CTNAG 6 cut(s) 640, 762, 891, 1065, 1324, 1346
DpnI GATC 7 cut(s) 638, 748, 769, 971, 1187, 1254, 1496
DpnII GATC 7 cut(s) 636, 746, 767, 969, 1185, 1252, 1494
DraI TTTAAA 1 cut(s) 240
Eam1104I CTCTTC 6 cut(s) 554, 672, 896, 979, 1088, 1347
EarI CTCTTC 6 cut(s) 554, 672, 896, 979, 1088, 1347
Ecl136II GAGCTC 1 cut(s) 936
Eco130I CCWWGG 1 cut(s) 417
Eco147I AGGCCT 1 cut(s) 1318
Eco24I GRGCYC 1 cut(s) 938
Eco32I GATATC 2 cut(s) 178, 1524
Eco47I GGWCC 2 cut(s) 484, 1548
Eco53kI GAGCTC 1 cut(s) 936
Eco81I CCTNAGG 1 cut(s) 1065
EcoICRI GAGCTC 1 cut(s) 936
EcoRI GAATTC 1 cut(s) 1100
EcoRII CCWGG 1 cut(s) 1429
EcoRV GATATC 2 cut(s) 178, 1524
EcoT14I CCWWGG 1 cut(s) 417
EcoT38I GRGCYC 1 cut(s) 938
ErhI CCWWGG 1 cut(s) 417
FaqI GGGAC 3 cut(s) 847, 1275, 1493
FauI CCCGC 1 cut(s) 106
FblI GTMKAC 1 cut(s) 1458
Fnu4HI GCNGC 3 cut(s) 464, 1338, 1392
FokI GGATG 4 cut(s) 388, 683, 795, 1105
FriOI GRGCYC 1 cut(s) 938
Fsp4HI GCNGC 3 cut(s) 464, 1338, 1392
FspBI CTAG 5 cut(s) 365, 518, 831, 1089, 1299
GluI GCNGC 3 cut(s) 464, 1338, 1392
GsuI CTGGAG 2 cut(s) 1290, 1452
HaeIII GGCC 2 cut(s) 146, 1318
HapII CCGG 4 cut(s) 98, 143, 493, 1310
Hin1I GRCGYC 1 cut(s) 860
HincII GTYRAC 1 cut(s) 775
HindII GTYRAC 1 cut(s) 775
HindIII AAGCTT 1 cut(s) 1284
HinfI GANTC 7 cut(s) 6, 15, 49, 575, 652, 987, 1322
HpaII CCGG 4 cut(s) 98, 143, 493, 1310
HphI GGTGA 3 cut(s) 21, 87, 764
Hpy166II GTNNAC 8 cut(s) 408, 718, 775, 886, 913, 1026, 1154, 1459
Hpy188I TCNGA 5 cut(s) 14, 813, 894, 1327, 1499
Hpy8I GTNNAC 8 cut(s) 408, 718, 775, 886, 913, 1026, 1154, 1459
Hpy99I CGWCG 2 cut(s) 49, 281
HpyAV CCTTC 4 cut(s) 697, 728, 1090, 1512
HpyCH4III ACNGT 1 cut(s) 589
HpyCH4IV ACGT 4 cut(s) 20, 81, 860, 1014
HpyF10VI GCNNNNNNNGC 6 cut(s) 40, 152, 1145, 1315, 1388, 1442
HpyF3I CTNAG 6 cut(s) 640, 762, 891, 1065, 1324, 1346
HpySE526I ACGT 4 cut(s) 20, 81, 860, 1014
Hsp92I GRCGYC 1 cut(s) 860
KspI CCGCGG 1 cut(s) 35
Kzo9I GATC 7 cut(s) 636, 746, 767, 969, 1185, 1252, 1494
LguI GCTCTTC 1 cut(s) 1347
LmnI GCTCC 4 cut(s) 116, 842, 933, 1433
Lsp1109I GCAGC 2 cut(s) 1349, 1378
LweI GCATC 4 cut(s) 661, 780, 967, 1296
MaeI CTAG 5 cut(s) 365, 518, 831, 1089, 1299
MaeII ACGT 4 cut(s) 20, 81, 860, 1014
MaeIII GTNAC 2 cut(s) 644, 1123
MalI GATC 7 cut(s) 638, 748, 769, 971, 1187, 1254, 1496
MboI GATC 7 cut(s) 636, 746, 767, 969, 1185, 1252, 1494
MflI RGATCY 2 cut(s) 1185, 1494
MhlI GDGCHC 3 cut(s) 888, 938, 1141
MluCI AATT 7 cut(s) 136, 281, 353, 1100, 1117, 1292, 1357
MlyI GAGTC 3 cut(s) 584, 996, 1316
MmeI TCCRAC 2 cut(s) 552, 1526
MnlI CCTC 3 cut(s) 661, 959, 1060
MroXI GAANNNNTTC 2 cut(s) 357, 1100
MseI TTAA 1 cut(s) 239
MslI CAYNNNNRTG 2 cut(s) 1091, 1368
MspA1I CMGCKG 1 cut(s) 34
MspI CCGG 4 cut(s) 98, 143, 493, 1310
MspR9I CCNGG 2 cut(s) 493, 1431
Mva1269I GAATGC 1 cut(s) 1420
MvaI CCWGG 1 cut(s) 1431
MvnI CGCG 2 cut(s) 34, 466
MwoI GCNNNNNNNGC 6 cut(s) 40, 152, 1145, 1315, 1388, 1442
NciI CCSGG 1 cut(s) 493
NcoI CCATGG 1 cut(s) 417
NdeII GATC 7 cut(s) 636, 746, 767, 969, 1185, 1252, 1494
NheI GCTAGC 1 cut(s) 830
NlaIV GGNNCC 1 cut(s) 147
NspI RCATGY 3 cut(s) 781, 952, 1201
NspV TTCGAA 1 cut(s) 1290
PaeI GCATGC 1 cut(s) 1201
PceI AGGCCT 1 cut(s) 1318
PciI ACATGT 2 cut(s) 777, 948
PciSI GCTCTTC 1 cut(s) 1347
PcsI WCGNNNNNNNCGW 2 cut(s) 857, 1028
PctI GAATGC 1 cut(s) 1420
PdmI GAANNNNTTC 2 cut(s) 357, 1100
PfeI GAWTC 4 cut(s) 6, 15, 49, 652
PflMI CCANNNNNTGG 1 cut(s) 155
PkrI GCNGC 3 cut(s) 465, 1339, 1393
PleI GAGTC 3 cut(s) 583, 995, 1316
PpsI GAGTC 3 cut(s) 583, 995, 1316
PscI ACATGT 2 cut(s) 777, 948
PsiI TTATAA 1 cut(s) 500
Psp124BI GAGCTC 1 cut(s) 938
Psp6I CCWGG 1 cut(s) 1429
PspGI CCWGG 1 cut(s) 1429
PspN4I GGNNCC 1 cut(s) 147
PspPI GGNCC 3 cut(s) 145, 484, 1548
PsuI RGATCY 2 cut(s) 1185, 1494
RsaI GTAC 3 cut(s) 329, 407, 628
RsaNI GTAC 3 cut(s) 328, 406, 627
RseI CAYNNNNRTG 2 cut(s) 1091, 1368
SacI GAGCTC 1 cut(s) 938
SacII CCGCGG 1 cut(s) 35
SapI GCTCTTC 1 cut(s) 1347
SaqAI TTAA 1 cut(s) 239
SatI GCNGC 3 cut(s) 464, 1338, 1392
Sau3AI GATC 7 cut(s) 636, 746, 767, 969, 1185, 1252, 1494
Sau96I GGNCC 3 cut(s) 145, 484, 1548
SchI GAGTC 3 cut(s) 584, 996, 1316
ScrFI CCNGG 2 cut(s) 493, 1431
SduI GDGCHC 3 cut(s) 888, 938, 1141
SfaNI GCATC 4 cut(s) 661, 780, 967, 1296
Sfr303I CCGCGG 1 cut(s) 35
SfuI TTCGAA 1 cut(s) 1290
SgrAI CRCCGGYG 1 cut(s) 97
SgrBI CCGCGG 1 cut(s) 35
SinI GGWCC 2 cut(s) 484, 1548
SmiMI CAYNNNNRTG 2 cut(s) 1091, 1368
SmlI CTYRAG 1 cut(s) 253
SmoI CTYRAG 1 cut(s) 253
SphI GCATGC 1 cut(s) 1201
Sse9I AATT 7 cut(s) 136, 281, 353, 1100, 1117, 1292, 1357
SseBI AGGCCT 1 cut(s) 1318
SsiI CCGC 7 cut(s) 32, 34, 113, 246, 464, 674, 963
SspI AATATT 1 cut(s) 817
SspMI CTAG 5 cut(s) 365, 518, 831, 1089, 1299
SstI GAGCTC 1 cut(s) 938
StuI AGGCCT 1 cut(s) 1318
StyD4I CCNGG 2 cut(s) 491, 1429
StyI CCWWGG 1 cut(s) 417
TaaI ACNGT 1 cut(s) 589
TaiI ACGT 4 cut(s) 23, 84, 863, 1017
TaqI TCGA 8 cut(s) 47, 276, 449, 788, 1031, 1077, 1170, 1290
TasI AATT 7 cut(s) 136, 281, 353, 1100, 1117, 1292, 1357
TatI WGTACW 1 cut(s) 626
TauI GCSGC 1 cut(s) 466
TfiI GAWTC 4 cut(s) 6, 15, 49, 652
Tru1I TTAA 1 cut(s) 239
Tru9I TTAA 1 cut(s) 239
TseI GCWGC 2 cut(s) 1337, 1391
TspDTI ATGAA 8 cut(s) 224, 617, 665, 882, 914, 1109, 1232, 1523
TspGWI ACGGA 2 cut(s) 388, 1094
Van91I CCANNNNNTGG 1 cut(s) 155
VneI GTGCAC 1 cut(s) 884
VpaK11BI GGWCC 2 cut(s) 484, 1548
XapI RAATTY 2 cut(s) 1100, 1292
XceI RCATGY 3 cut(s) 781, 952, 1201
XmiI GTMKAC 1 cut(s) 1458
XmnI GAANNNNTTC 2 cut(s) 357, 1100
XspI CTAG 5 cut(s) 365, 518, 831, 1089, 1299
ZraI GACGTC 1 cut(s) 861
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.