AT2G20540

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
2
OG0014514
Physical Location & Seq
Forward (+)
8844079 .. 8846095
2017 bp
Loading structure...
UTR
Exon/CDS
Intron
AT2G20540.1

Sequence Viewer

Length: 1605 bp
ATGGCGTTTCATGGAATCAGAGAAGTTGAAAACTATTTTATACCTTTTCTACAGCGAGTCAAAAGCCGCAATGAATGGAAGAAGATCAATGCCTCCATCATCATACATGGATTATCACAAAGCAGCTTCATGGTCACTAAAATGGTGGATTTTTGTGATAAGATTGAAGATATGGATTATGCAACTCGTCTTTTTAACCAAGTATCGAATCCTAATGTCTTCTTATACAATTCTATAATTCGTGCTTATACTCACAATTCATTGTACTGCGATGTGATCAGAATCTACAAGCAACTGCTCAGGAAGAGCTTTGAGTTACCAGATCGGTTCACTTTCCCGTTTATGTTTAAATCTTGTGCGAGTCTTGGATCATGTTATTTAGGGAAGCAAGTTCATGGTCATCTCTGCAAATTCGGGCCTAGGTTCCATGTTGTGACTGAGAATGCATTGATTGATATGTACATGAAGTTTGATGATCTTGTTGATGCACATAAAGTGTTTGATGAAATGTATGAGAGAGATGTTATATCTTGGAATAGTTTGCTTTCTGGATATGCAAGGCTTGGGCAGATGAAGAAAGCAAAAGGCTTGTTTCATTTGATGCTAGATAAAACTATTGTATCTTGGACTGCGATGATCTCTGGGTATACTGGGATTGGTTGTTATGTAGAGGCTATGGATTTCTTCCGTGAAATGCAGTTAGCTGGTATTGAGCCTGATGAGATCAGTCTCATTTCTGTTTTACCGTCGTGTGCGCAGCTCGGATCTCTAGAGCTTGGGAAATGGATCCATCTATATGCAGAGAGAAGAGGGTTTCTGAAACAAACTGGTGTTTGCAATGCTCTTATTGAAATGTACTCGAAATGTGGTGTGATTAGTCAAGCTATCCAATTGTTTGGCCAAATGGAAGGGAAAGATGTTATATCATGGAGTACGATGATCTCTGGGTATGCATATCACGGGAACGCTCACGGAGCAATCGAAACATTCAATGAAATGCAGAGAGCGAAGGTGAAGCCTAACGGGATCACATTTCTTGGTCTTTTATCAGCTTGTTCACATGTTGGTATGTGGCAAGAAGGGTTGAGGTATTTTGATATGATGAGACAAGATTATCAAATAGAACCTAAGATCGAACACTATGGCTGTTTGATTGATGTTTTGGCAAGAGCAGGAAAACTAGAACGAGCTGTTGAAATAACAAAGACAATGCCGATGAAACCCGACTCGAAGATATGGGGTTCATTGTTGAGCTCTTGCAGAACACCAGGCAATCTTGATGTTGCTCTGGTTGCAATGGATCATCTTGTGGAGCTAGAGCCGGAGGATATGGGAAATTATGTTTTGCTTGCCAATATTTACGCAGATTTGGGAAAATGGGAGGATGTTTCGAGATTGAGAAAGATGATAAGGAACGAAAATATGAAGAAAACGCCAGGTGGTAGTTTGATAGAAGTGAACAACATTGTTCAGGAATTCGTTTCAGGAGATAACAGTAAACCTTTTTGGACTGAGATATCTATAGTGCTGCAGTTGTTTACTTCACATCAAGATCAGGATGTGATTACAAACAACAATGCTCTTGCATTTATAGGCATAGTTTAG

Protein Analysis

534

Amino Acids

60.88

Weight (kDa)

6.44

Isoelectric Point (pI)

36.62

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 173 - 204 7e-06 PPR repeat family
PPR PF01535 176 - 204 2.5e-07 PPR repeat
PPR_2 PF13041 205 - 251 5.8e-08 PPR repeat family
PPR PF01535 207 - 237 2.1e-06 PPR repeat
PPR_2 PF13041 305 - 353 4.2e-11 PPR repeat family
PPR_3 PF13812 306 - 352 6.9e-07 Pentatricopeptide repeat domain
PPR PF01535 308 - 336 2.2e-06 PPR repeat
E_motif PF20431 425 - 485 1.1e-20 E motif
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: OG0014514)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G20540 AT2G20540
fragaria_vesca FvH4_2g36320
malus_domestica MD15G1099800.v1.1
prunus_persica Prupe.1G454600_v2.0.a1
pyrus_communis pycom15g09180
rosa_chinensis RchiOBHm_Chr6g0305561
rosa_laevigata RLG00000010877
rosa_multiflora Rmu_co8430547.1_g000001 Rmu_sc0000841.1_g000002 Rmu_sc0001153.1_g000005
rosa_roxburghii Rroxscaffold_7G00162590
rosa_rugosa Rorug06G0341700
rosa_samantha Rh6AG453700 Rh6BG447900 Rh6DG454000
rosa_wichuraiana Rw6G039540

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 756
AccI GTMKAC 1 cut(s) 647
AciI CCGC 1 cut(s) 67
AclWI GGATC 6 cut(s) 376, 772, 781, 794, 1034, 1308
AcoI YGGCCR 1 cut(s) 898
AcsI RAATTY 2 cut(s) 410, 1475
AfaI GTAC 4 cut(s) 266, 461, 857, 934
AflIII ACRYGT 1 cut(s) 1060
AgsI TTSAA 5 cut(s) 29, 167, 851, 991, 1196
AjnI CCWGG 2 cut(s) 1267, 1435
Alw21I GWGCWC 1 cut(s) 1256
Alw26I GTCTC 2 cut(s) 734, 1099
AlwI GGATC 6 cut(s) 376, 772, 781, 794, 1034, 1308
AoxI GGCC 2 cut(s) 416, 898
ApeKI GCWGC 3 cut(s) 123, 757, 1528
ApoI RAATTY 2 cut(s) 410, 1475
AspA2I CCTAGG 1 cut(s) 419
AspLEI GCGC 1 cut(s) 757
AspS9I GGNCC 1 cut(s) 416
AsuHPI GGTGA 1 cut(s) 1024
AvrII CCTAGG 1 cut(s) 419
BaeI ACNNNNGTAYC 2 cut(s) 603, 636
BalI TGGCCA 1 cut(s) 900
BamHI GGATCC 1 cut(s) 786
BanII GRGCYC 1 cut(s) 1256
BbsI GAAGAC 1 cut(s) 211
Bbv12I GWGCWC 1 cut(s) 1256
BbvI GCAGC 3 cut(s) 135, 769, 1515
BccI CCATC 2 cut(s) 104, 798
BciT130I CCWGG 2 cut(s) 1269, 1437
BclI TGATCA 1 cut(s) 276
BcoDI GTCTC 2 cut(s) 734, 1099
BfaI CTAG 5 cut(s) 420, 605, 770, 1181, 1316
BfmI CTRYAG 3 cut(s) 50, 1521, 1529
BisI GCNGC 4 cut(s) 67, 124, 758, 1529
BlnI CCTAGG 1 cut(s) 419
BlsI GCNGC 4 cut(s) 68, 125, 759, 1530
Bme1390I CCNGG 2 cut(s) 1269, 1437
BmgT120I GGNCC 1 cut(s) 416
BmiI GGNNCC 2 cut(s) 425, 788
BmrFI CCNGG 2 cut(s) 1269, 1437
BmrI ACTGGG 1 cut(s) 660
BmsI GCATC 2 cut(s) 475, 591
BmuI ACTGGG 1 cut(s) 660
BpiI GAAGAC 1 cut(s) 211
Bpu10I CCTNAGC 1 cut(s) 299
BsaBI GATNNNNATC 1 cut(s) 281
BsaJI CCNNGG 1 cut(s) 419
Bse1I ACTGG 2 cut(s) 655, 832
Bse3DI GCAATG 3 cut(s) 76, 844, 1302
Bse8I GATNNNNATC 1 cut(s) 281
BseBI CCWGG 2 cut(s) 1269, 1437
BseDI CCNNGG 1 cut(s) 419
BseGI GGATG 2 cut(s) 1390, 1564
BseJI GATNNNNATC 1 cut(s) 281
BseMI GCAATG 3 cut(s) 76, 844, 1302
BseMII CTCAG 3 cut(s) 313, 429, 1503
BseNI ACTGG 2 cut(s) 655, 832
BseXI GCAGC 3 cut(s) 135, 769, 1515
BshFI GGCC 2 cut(s) 418, 900
BsiHKAI GWGCWC 1 cut(s) 1256
BsiSI CCGG 1 cut(s) 1322
BsmAI GTCTC 2 cut(s) 734, 1099
BsmI GAATGC 1 cut(s) 448
BsnI GGCC 2 cut(s) 418, 900
Bsp1286I GDGCHC 1 cut(s) 1256
Bsp1407I TGTACA 1 cut(s) 459
BspACI CCGC 1 cut(s) 67
BspANI GGCC 2 cut(s) 418, 900
BspCNI CTCAG 3 cut(s) 312, 430, 1504
BspLI GGNNCC 2 cut(s) 425, 788
BspMAI CTGCAG 1 cut(s) 1533
BspPI GGATC 6 cut(s) 376, 772, 781, 794, 1034, 1308
BspQI GCTCTTC 1 cut(s) 299
BsrDI GCAATG 3 cut(s) 76, 844, 1302
BsrGI TGTACA 1 cut(s) 459
BsrI ACTGG 2 cut(s) 655, 832
BssECI CCNNGG 1 cut(s) 419
BssNAI GTATAC 1 cut(s) 648
BssT1I CCWWGG 1 cut(s) 419
Bst1107I GTATAC 1 cut(s) 648
Bst2UI CCWGG 2 cut(s) 1269, 1437
Bst4CI ACNGT 2 cut(s) 747, 1496
Bst6I CTCTTC 2 cut(s) 299, 802
BstAUI TGTACA 1 cut(s) 459
BstC8I GCNNGC 1 cut(s) 1350
BstDEI CTNAG 4 cut(s) 299, 438, 1128, 1512
BstF5I GGATG 2 cut(s) 1390, 1564
BstHHI GCGC 1 cut(s) 757
BstMAI GTCTC 2 cut(s) 734, 1099
BstMWI GCNNNNNNNGC 2 cut(s) 974, 1292
BstNI CCWGG 2 cut(s) 1269, 1437
BstNSI RCATGY 1 cut(s) 1064
BstSCI CCNGG 2 cut(s) 1267, 1435
BstSFI CTRYAG 3 cut(s) 50, 1521, 1529
BstV1I GCAGC 3 cut(s) 135, 769, 1515
BstV2I GAAGAC 1 cut(s) 211
BstX2I RGATCY 2 cut(s) 764, 786
BstXI CCANNNNNNTGG 1 cut(s) 896
BstYI RGATCY 2 cut(s) 764, 786
BstZ17I GTATAC 1 cut(s) 648
BsuRI GGCC 2 cut(s) 418, 900
BtgZI GCGATG 2 cut(s) 285, 647
BtsCI GGATG 2 cut(s) 1390, 1564
Cac8I GCNNGC 1 cut(s) 1350
CfoI GCGC 1 cut(s) 757
Cfr13I GGNCC 1 cut(s) 416
Csp6I GTAC 4 cut(s) 265, 460, 856, 933
CviAII CATG 9 cut(s) 11, 107, 130, 372, 395, 428, 463, 927, 1061
CviQI GTAC 4 cut(s) 265, 460, 856, 933
DdeI CTNAG 4 cut(s) 299, 438, 1128, 1512
DraI TTTAAA 1 cut(s) 349
EaeI YGGCCR 1 cut(s) 898
Eam1104I CTCTTC 2 cut(s) 299, 802
EarI CTCTTC 2 cut(s) 299, 802
Ecl136II GAGCTC 1 cut(s) 1254
Eco130I CCWWGG 1 cut(s) 419
Eco24I GRGCYC 1 cut(s) 1256
Eco32I GATATC 1 cut(s) 1518
Eco53kI GAGCTC 1 cut(s) 1254
EcoICRI GAGCTC 1 cut(s) 1254
EcoRI GAATTC 1 cut(s) 1475
EcoRII CCWGG 2 cut(s) 1267, 1435
EcoRV GATATC 1 cut(s) 1518
EcoT14I CCWWGG 1 cut(s) 419
EcoT22I ATGCAT 2 cut(s) 448, 955
EcoT38I GRGCYC 1 cut(s) 1256
ErhI CCWWGG 1 cut(s) 419
FaeI CATG 9 cut(s) 14, 110, 133, 375, 398, 431, 466, 930, 1064
FatI CATG 9 cut(s) 10, 106, 129, 371, 394, 427, 462, 926, 1060
FbaI TGATCA 1 cut(s) 276
FblI GTMKAC 1 cut(s) 647
Fnu4HI GCNGC 4 cut(s) 67, 124, 758, 1529
FokI GGATG 2 cut(s) 1397, 1571
FriOI GRGCYC 1 cut(s) 1256
Fsp4HI GCNGC 4 cut(s) 67, 124, 758, 1529
FspBI CTAG 5 cut(s) 420, 605, 770, 1181, 1316
FspI TGCGCA 1 cut(s) 756
GlaI GCGC 1 cut(s) 756
GluI GCNGC 4 cut(s) 67, 124, 758, 1529
HaeIII GGCC 2 cut(s) 418, 900
HapII CCGG 1 cut(s) 1322
HhaI GCGC 1 cut(s) 757
Hin1II CATG 9 cut(s) 14, 110, 133, 375, 398, 431, 466, 930, 1064
Hin6I GCGC 1 cut(s) 755
HinP1I GCGC 1 cut(s) 755
HinfI GANTC 6 cut(s) 15, 57, 208, 282, 361, 1226
HpaII CCGG 1 cut(s) 1322
HphI GGTGA 1 cut(s) 1024
Hpy166II GTNNAC 6 cut(s) 330, 648, 1058, 1459, 1499, 1539
Hpy188I TCNGA 4 cut(s) 20, 281, 764, 819
Hpy188III TCNNGA 9 cut(s) 301, 549, 770, 1277, 1392, 1472, 1485, 1550, 1556
Hpy8I GTNNAC 6 cut(s) 330, 648, 1058, 1459, 1499, 1539
Hpy99I CGWCG 1 cut(s) 751
HpyAV CCTTC 3 cut(s) 902, 1003, 1073
HpyCH4III ACNGT 2 cut(s) 747, 1496
HpyF10VI GCNNNNNNNGC 2 cut(s) 974, 1292
HpyF3I CTNAG 4 cut(s) 299, 438, 1128, 1512
Hsp92II CATG 9 cut(s) 14, 110, 133, 375, 398, 431, 466, 930, 1064
HspAI GCGC 1 cut(s) 755
Ksp22I TGATCA 1 cut(s) 276
LguI GCTCTTC 1 cut(s) 299
LmnI GCTCC 2 cut(s) 974, 1312
Lsp1109I GCAGC 3 cut(s) 135, 769, 1515
LweI GCATC 2 cut(s) 475, 591
MaeI CTAG 5 cut(s) 420, 605, 770, 1181, 1316
MaeIII GTNAC 3 cut(s) 133, 315, 433
MfeI CAATTG 1 cut(s) 890
MflI RGATCY 2 cut(s) 764, 786
MhlI GDGCHC 1 cut(s) 1256
MlsI TGGCCA 1 cut(s) 900
MluCI AATT 7 cut(s) 229, 237, 256, 410, 890, 1336, 1475
MluNI TGGCCA 1 cut(s) 900
MlyI GAGTC 3 cut(s) 66, 370, 1220
MnlI CCTC 6 cut(s) 103, 664, 803, 1080, 1318, 1375
Mox20I TGGCCA 1 cut(s) 900
Mph1103I ATGCAT 2 cut(s) 448, 955
MscI TGGCCA 1 cut(s) 900
MseI TTAA 2 cut(s) 195, 348
MslI CAYNNNNRTG 2 cut(s) 140, 795
Msp20I TGGCCA 1 cut(s) 900
MspI CCGG 1 cut(s) 1322
MspR9I CCNGG 2 cut(s) 1269, 1437
MunI CAATTG 1 cut(s) 890
Mva1269I GAATGC 1 cut(s) 448
MvaI CCWGG 2 cut(s) 1269, 1437
MwoI GCNNNNNNNGC 2 cut(s) 974, 1292
NlaIII CATG 9 cut(s) 14, 110, 133, 375, 398, 431, 466, 930, 1064
NlaIV GGNNCC 2 cut(s) 425, 788
NmuCI GTSAC 2 cut(s) 133, 433
NsbI TGCGCA 1 cut(s) 756
NsiI ATGCAT 2 cut(s) 448, 955
NspI RCATGY 1 cut(s) 1064
PciI ACATGT 1 cut(s) 1060
PciSI GCTCTTC 1 cut(s) 299
PcsI WCGNNNNNNNCGW 1 cut(s) 978
PctI GAATGC 1 cut(s) 448
PfeI GAWTC 3 cut(s) 15, 208, 282
PkrI GCNGC 4 cut(s) 68, 125, 759, 1530
PleI GAGTC 3 cut(s) 65, 369, 1220
PpsI GAGTC 3 cut(s) 65, 369, 1220
PscI ACATGT 1 cut(s) 1060
Psp124BI GAGCTC 1 cut(s) 1256
Psp6I CCWGG 2 cut(s) 1267, 1435
PspGI CCWGG 2 cut(s) 1267, 1435
PspN4I GGNNCC 2 cut(s) 425, 788
PspPI GGNCC 1 cut(s) 416
PstI CTGCAG 1 cut(s) 1533
PsuI RGATCY 2 cut(s) 764, 786
RsaI GTAC 4 cut(s) 266, 461, 857, 934
RsaNI GTAC 4 cut(s) 265, 460, 856, 933
RseI CAYNNNNRTG 2 cut(s) 140, 795
SacI GAGCTC 1 cut(s) 1256
SapI GCTCTTC 1 cut(s) 299
SaqAI TTAA 2 cut(s) 195, 348
SatI GCNGC 4 cut(s) 67, 124, 758, 1529
Sau96I GGNCC 1 cut(s) 416
SchI GAGTC 3 cut(s) 66, 370, 1220
ScrFI CCNGG 2 cut(s) 1269, 1437
SduI GDGCHC 1 cut(s) 1256
SfaNI GCATC 2 cut(s) 475, 591
SfcI CTRYAG 3 cut(s) 50, 1521, 1529
SmiMI CAYNNNNRTG 2 cut(s) 140, 795
Sse9I AATT 7 cut(s) 229, 237, 256, 410, 890, 1336, 1475
SsiI CCGC 1 cut(s) 67
SspI AATATT 1 cut(s) 1357
SspMI CTAG 5 cut(s) 420, 605, 770, 1181, 1316
SstI GAGCTC 1 cut(s) 1256
StyD4I CCNGG 2 cut(s) 1267, 1435
StyI CCWWGG 1 cut(s) 419
TaaI ACNGT 2 cut(s) 747, 1496
TaqI TCGA 6 cut(s) 206, 860, 981, 1134, 1229, 1391
TasI AATT 7 cut(s) 229, 237, 256, 410, 890, 1336, 1475
TatI WGTACW 3 cut(s) 264, 459, 855
TauI GCSGC 1 cut(s) 69
TfiI GAWTC 3 cut(s) 15, 208, 282
Tru1I TTAA 2 cut(s) 195, 348
Tru9I TTAA 2 cut(s) 195, 348
TseFI GTSAC 2 cut(s) 133, 433
TseI GCWGC 3 cut(s) 123, 757, 1528
Tsp45I GTSAC 2 cut(s) 133, 433
TspGWI ACGGA 2 cut(s) 677, 987
XapI RAATTY 2 cut(s) 410, 1475
XbaI TCTAGA 1 cut(s) 769
XceI RCATGY 1 cut(s) 1064
XmaJI CCTAGG 1 cut(s) 419
XmiI GTMKAC 1 cut(s) 647
XspI CTAG 5 cut(s) 420, 605, 770, 1181, 1316
Zsp2I ATGCAT 2 cut(s) 448, 955
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.