MD05G1026300.v1.1

Pentatricopeptide repeat-containing protein At1g77360

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr05
OG0009496
Physical Location & Seq
Forward (+)
4216030 .. 4219575
3546 bp
Loading structure...
UTR
Exon/CDS
Intron
MD05G1026300.v1.1.491

Sequence Viewer

Length: 1446 bp
ATGGCCATAAAATTACAAAAATGTGGGGAAAGATTAGGTTTTGGGTTGATGAAATTGACCCGGAATTACTGTTCAACAGAACCCACTAGGCAATTTTCCGACCCAACAAAAAGAATTTTCAAAATCATGATGTCCTGCCCAACACTTGCTCTTGATACCGCCCTTGACCAAACCGGGATCCGAATTTCACCCGAAATGGTAGAGGAAGTTCTCATGAGATTCAACAATGCTGGTATGGTTGCATACCGGTTCTTTGAGTGGGCGGCAAAGCAGCGAAATTATTCGCATAGTGTTAAGGCCTACCATGCTATGATTGAATCTTTGGCCAAGATCAGGCAGTACCAGATCATGTGGGAGCTTGTGAACTCGATGAGGGCGAAGAGGATTCAGAATATGGAGACGTTTGGAATCATTATGAGGAAGTATGCCAGGGCACAGAAGGTTGAGGAAGCGCTTTATACATTTAATGTTATGGAGAAGTATGATTGTGCTCCGAATTTAGCGGCGTTCAATGGCCTGCTGAGTGCTCTGTGTAAGTCCAAGAATGTGAGGAAGGCTCAGGAGGTTTTTGATAAAGTGAAGGATCGGTTTGAGCCAGACTCAAAGACCTATAGTATATTGATTGGCGGGTGGGGGAAGGATCCGAATTTGCCTAAAGCGAGGGAGGTGTTCAGAGAAATGATTGATGCGGGTTGCAATCCTGATATAGTGACTTATGGTATCATGGTTGATGTTCTTTGTAAGGCAGGGAGGGTGGATGAAGCCGTTGATATTGTTCGGGGCATGGATGATAGTGGTTGTATGCCGACGTCCTTTATTTATAGTGTTTTGGTGCATACATATGGGGTTGAAAACAGGATTGAAGATGCTGTTGCTGCATTCTTGGAGATGGAAAGGAATGGAATAAGGGCTGATGTGGTTGTGTACAATGCCTTGATCGGCGCTTTTTGTAAGGCTAACAAGTTCAAGAACGTCTATAGGGTCTTAAACTATATGAATTCCAAAGGCGTTACTCCCAATTCGAGGACTTGCAATATCATTTTAAATAGTTTGATTGACCGTGAAGAGACTGAGGAGGCATTTAGCGTCTTCCGCAAAATGATCAAAGTATGTGAGCCAGATGCAGATACGTATACAATGATGATAAAGATGTTTTGTGAGAGAGATGAGTTGAAGATGGCCTATAAAGTCTGGAAGTACATGAAGTTGAAGCAGTTTGTCCCGAGCATGCACACGTATTCAGTCCTTATAAATGGATTTTGTGAGAAGGGAAATGCTTCAAAGGCTTGTGTCTTACTGGAAGAGATGATAGAGAAGGGGATTCGACCAGCAGGTGTGACTTTTGGGAGATTAAGGCAGTTGCTGATAAAAGAAGGAAGAGAAGATGTGCTCAAATTTTTAAACGAAAAAGTTAATCTTCTTGTCAAGGAGCCTTTATTCGATTGA

Protein Analysis

482

Amino Acids

55.2

Weight (kDa)

8.93

Isoelectric Point (pI)

30.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 133 - 179 3.8e-08 PPR repeat family
PPR_2 PF13041 165 - 210 2.1e-09 PPR repeat family
PPR_2 PF13041 199 - 248 6.9e-12 PPR repeat family
PPR_long PF17177 218 - 347 4e-08 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 223 - 282 3.5e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 231 - 262 4.6e-12 PPR repeat
PPR PF01535 237 - 267 2.2e-06 PPR repeat
TPR_24 PF23276 290 - 399 6.1e-10 Fungal tetratrico peptide repeats
PPR_3 PF13812 296 - 351 5.9e-11 Pentatricopeptide repeat domain
PPR_1 PF12854 300 - 332 3e-06 PPR repeat
PPR_2 PF13041 305 - 351 3.6e-14 PPR repeat family
PPR_2 PF13041 340 - 386 4.3e-10 PPR repeat family
PPR_long PF17177 357 - 467 1.2e-08 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 371 - 402 4.1e-06 PPR repeat
PPR_2 PF13041 373 - 421 3.6e-14 PPR repeat family
PPR_1 PF12854 406 - 436 1e-08 PPR repeat
PPR PF01535 412 - 441 3.2e-07 PPR repeat
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) 1250
AarI CACCTGC 1 cut(s) 1322
AatII GACGTC 1 cut(s) 812
Acc36I ACCTGC 1 cut(s) 1322
AccI GTMKAC 1 cut(s) 1133
AciI CCGC 6 cut(s) 159, 263, 503, 627, 689, 1093
AclWI GGATC 5 cut(s) 172, 185, 591, 635, 648
AcoI YGGCCR 2 cut(s) 3, 324
AcsI RAATTY 6 cut(s) 114, 183, 496, 646, 997, 1394
AcyI GRCGYC 1 cut(s) 809
AfaI GTAC 3 cut(s) 341, 926, 1199
AfeI AGCGCT 1 cut(s) 453
AfiI CCNNNNNNNGG 2 cut(s) 333, 1023
AflIII ACRYGT 1 cut(s) 1233
AgeI ACCGGT 1 cut(s) 246
AjnI CCWGG 1 cut(s) 428
AloI GAACNNNNNNTCC 2 cut(s) 55, 87
AluBI AGCT 1 cut(s) 358
AluI AGCT 1 cut(s) 358
Alw21I GWGCWC 3 cut(s) 493, 529, 1392
Alw26I GTCTC 2 cut(s) 392, 1061
AlwI GGATC 5 cut(s) 172, 185, 591, 635, 648
AlwNI CAGNNNCTG 1 cut(s) 1363
Ama87I CYCGRG 1 cut(s) 1222
Aor51HI AGCGCT 1 cut(s) 453
AoxI GGCC 5 cut(s) 3, 297, 324, 514, 1179
ApeKI GCWGC 2 cut(s) 271, 875
ApoI RAATTY 6 cut(s) 114, 183, 496, 646, 997, 1394
AsiGI ACCGGT 1 cut(s) 246
Asp700I GAANNNNTTC 2 cut(s) 280, 1276
AspLEI GCGC 2 cut(s) 454, 944
AsuC2I CCSGG 2 cut(s) 61, 175
AsuHPI GGTGA 1 cut(s) 180
AvaI CYCGRG 1 cut(s) 1222
BaeGI GKGCMC 1 cut(s) 436
BalI TGGCCA 2 cut(s) 5, 326
BamHI GGATCC 2 cut(s) 177, 640
BbsI GAAGAC 1 cut(s) 1081
Bbv12I GWGCWC 3 cut(s) 493, 529, 1392
BbvI GCAGC 2 cut(s) 283, 862
BccI CCATC 2 cut(s) 883, 1171
BceAI ACGGC 1 cut(s) 749
BciT130I CCWGG 1 cut(s) 430
BclI TGATCA 1 cut(s) 1101
BcnI CCSGG 2 cut(s) 61, 175
BcoDI GTCTC 2 cut(s) 392, 1061
BfaI CTAG 1 cut(s) 87
BfmI CTRYAG 2 cut(s) 610, 976
BfoI RGCGCY 2 cut(s) 455, 945
BfuAI ACCTGC 1 cut(s) 1322
BisI GCNGC 4 cut(s) 264, 272, 504, 876
BlsI GCNGC 4 cut(s) 265, 273, 505, 877
Bme1390I CCNGG 3 cut(s) 61, 175, 430
BmeT110I CYCGRG 1 cut(s) 1222
BmiI GGNNCC 3 cut(s) 179, 642, 1431
BmrFI CCNGG 3 cut(s) 61, 175, 430
BmsI GCATC 3 cut(s) 676, 856, 1111
BpiI GAAGAC 1 cut(s) 1081
BplI GAGNNNNNCTC 4 cut(s) 541, 573, 584, 616
Bpu10I CCTNAGC 1 cut(s) 558
BpuMI CCSGG 2 cut(s) 61, 175
BsaAI YACGTR 2 cut(s) 1131, 1236
BsaHI GRCGYC 1 cut(s) 809
BsaJI CCNNGG 1 cut(s) 429
BsaWI WCCGGW 1 cut(s) 246
Bsc4I CCNNNNNNNGG 2 cut(s) 333, 1023
Bse118I RCCGGY 1 cut(s) 246
Bse1I ACTGG 1 cut(s) 1302
BseBI CCWGG 1 cut(s) 430
BseDI CCNNGG 1 cut(s) 429
BseGI GGATG 2 cut(s) 763, 793
BseLI CCNNNNNNNGG 2 cut(s) 333, 1023
BseMII CTCAG 3 cut(s) 512, 572, 1062
BseNI ACTGG 1 cut(s) 1302
BseRI GAGGAG 1 cut(s) 1088
BseSI GKGCMC 1 cut(s) 436
BseXI GCAGC 2 cut(s) 283, 862
BshFI GGCC 5 cut(s) 5, 299, 326, 516, 1181
BshTI ACCGGT 1 cut(s) 246
BsiHKAI GWGCWC 3 cut(s) 493, 529, 1392
BsiHKCI CYCGRG 1 cut(s) 1222
BsiSI CCGG 3 cut(s) 61, 174, 247
BslFI GGGAC 1 cut(s) 1205
BslI CCNNNNNNNGG 2 cut(s) 333, 1023
BsmAI GTCTC 2 cut(s) 392, 1061
BsmBI CGTCTC 1 cut(s) 392
BsmFI GGGAC 1 cut(s) 1205
BsmI GAATGC 1 cut(s) 878
BsnI GGCC 5 cut(s) 5, 299, 326, 516, 1181
BsoBI CYCGRG 1 cut(s) 1222
Bsp1286I GDGCHC 4 cut(s) 436, 493, 529, 1392
Bsp1407I TGTACA 1 cut(s) 924
Bsp143I GATC 7 cut(s) 177, 330, 345, 583, 640, 936, 1101
BspACI CCGC 6 cut(s) 159, 263, 503, 627, 689, 1093
BspANI GGCC 5 cut(s) 5, 299, 326, 516, 1181
BspCNI CTCAG 3 cut(s) 513, 571, 1063
BspHI TCATGA 2 cut(s) 126, 213
BspLI GGNNCC 3 cut(s) 179, 642, 1431
BspMI ACCTGC 1 cut(s) 1322
BspPI GGATC 5 cut(s) 172, 185, 591, 635, 648
BsrFI RCCGGY 1 cut(s) 246
BsrGI TGTACA 1 cut(s) 924
BsrI ACTGG 1 cut(s) 1302
BssAI RCCGGY 1 cut(s) 246
BssECI CCNNGG 1 cut(s) 429
BssMI GATC 7 cut(s) 177, 330, 345, 583, 640, 936, 1101
BssNAI GTATAC 1 cut(s) 1134
BssNI GRCGYC 1 cut(s) 809
Bst1107I GTATAC 1 cut(s) 1134
Bst2UI CCWGG 1 cut(s) 430
Bst4CI ACNGT 2 cut(s) 71, 1061
Bst6I CTCTTC 4 cut(s) 374, 1059, 1296, 1372
BstACI GRCGYC 1 cut(s) 809
BstAUI TGTACA 1 cut(s) 924
BstBAI YACGTR 2 cut(s) 1131, 1236
BstC8I GCNNGC 2 cut(s) 518, 1229
BstDEI CTNAG 3 cut(s) 521, 558, 1071
BstF5I GGATG 2 cut(s) 763, 793
BstH2I RGCGCY 2 cut(s) 455, 945
BstHHI GCGC 2 cut(s) 454, 944
BstKTI GATC 7 cut(s) 180, 333, 348, 586, 643, 939, 1104
BstMAI GTCTC 2 cut(s) 392, 1061
BstMBI GATC 7 cut(s) 177, 330, 345, 583, 640, 936, 1101
BstMWI GCNNNNNNNGC 4 cut(s) 305, 875, 1092, 1283
BstNI CCWGG 1 cut(s) 430
BstNSI RCATGY 1 cut(s) 1231
BstSCI CCNGG 3 cut(s) 59, 173, 428
BstSFI CTRYAG 2 cut(s) 610, 976
BstSLI GKGCMC 1 cut(s) 436
BstSNI TACGTA 1 cut(s) 1131
BstV1I GCAGC 2 cut(s) 283, 862
BstV2I GAAGAC 1 cut(s) 1081
BstX2I RGATCY 2 cut(s) 177, 640
BstYI RGATCY 2 cut(s) 177, 640
BstZ17I GTATAC 1 cut(s) 1134
BsuRI GGCC 5 cut(s) 5, 299, 326, 516, 1181
BtsCI GGATG 2 cut(s) 763, 793
BveI ACCTGC 1 cut(s) 1322
Cac8I GCNNGC 2 cut(s) 518, 1229
CaiI CAGNNNCTG 1 cut(s) 1363
CciI TCATGA 2 cut(s) 126, 213
CfoI GCGC 2 cut(s) 454, 944
Cfr10I RCCGGY 1 cut(s) 246
CseI GACGC 1 cut(s) 1075
Csp6I GTAC 3 cut(s) 340, 925, 1198
CspAI ACCGGT 1 cut(s) 246
CviAII CATG 8 cut(s) 127, 214, 305, 349, 724, 784, 1201, 1228
CviQI GTAC 3 cut(s) 340, 925, 1198
DdeI CTNAG 3 cut(s) 521, 558, 1071
DpnI GATC 7 cut(s) 179, 332, 347, 585, 642, 938, 1103
DpnII GATC 7 cut(s) 177, 330, 345, 583, 640, 936, 1101
DraI TTTAAA 2 cut(s) 1044, 1401
EaeI YGGCCR 2 cut(s) 3, 324
Eam1104I CTCTTC 4 cut(s) 374, 1059, 1296, 1372
EarI CTCTTC 4 cut(s) 374, 1059, 1296, 1372
Eco105I TACGTA 1 cut(s) 1131
Eco147I AGGCCT 1 cut(s) 299
Eco47III AGCGCT 1 cut(s) 453
Eco88I CYCGRG 1 cut(s) 1222
EcoRI GAATTC 1 cut(s) 997
EcoRII CCWGG 1 cut(s) 428
Esp3I CGTCTC 1 cut(s) 392
FaeI CATG 8 cut(s) 130, 217, 308, 352, 727, 787, 1204, 1231
FalI AAGNNNNNCTT 2 cut(s) 1401, 1433
FaqI GGGAC 1 cut(s) 1205
FatI CATG 8 cut(s) 126, 213, 304, 348, 723, 783, 1200, 1227
FauI CCCGC 2 cut(s) 620, 682
FauNDI CATATG 1 cut(s) 841
FbaI TGATCA 1 cut(s) 1101
FblI GTMKAC 1 cut(s) 1133
Fnu4HI GCNGC 4 cut(s) 264, 272, 504, 876
FokI GGATG 2 cut(s) 770, 800
Fsp4HI GCNGC 4 cut(s) 264, 272, 504, 876
FspBI CTAG 1 cut(s) 87
GlaI GCGC 2 cut(s) 453, 943
GluI GCNGC 4 cut(s) 264, 272, 504, 876
HaeII RGCGCY 2 cut(s) 455, 945
HaeIII GGCC 5 cut(s) 5, 299, 326, 516, 1181
HapII CCGG 3 cut(s) 61, 174, 247
HgaI GACGC 1 cut(s) 1075
HhaI GCGC 2 cut(s) 454, 944
Hin1I GRCGYC 1 cut(s) 809
Hin1II CATG 8 cut(s) 130, 217, 308, 352, 727, 787, 1204, 1231
Hin6I GCGC 2 cut(s) 452, 942
HinP1I GCGC 2 cut(s) 452, 942
HinfI GANTC 6 cut(s) 219, 317, 385, 408, 599, 1321
HpaII CCGG 3 cut(s) 61, 174, 247
HphI GGTGA 1 cut(s) 180
Hpy166II GTNNAC 3 cut(s) 364, 925, 1134
Hpy188I TCNGA 6 cut(s) 100, 182, 390, 495, 645, 674
Hpy188III TCNNGA 8 cut(s) 127, 152, 214, 560, 701, 967, 1192, 1222
Hpy8I GTNNAC 3 cut(s) 364, 925, 1134
Hpy99I CGWCG 1 cut(s) 811
HpyAV CCTTC 7 cut(s) 433, 547, 574, 631, 1261, 1309, 1367
HpyCH4III ACNGT 2 cut(s) 71, 1061
HpyCH4IV ACGT 5 cut(s) 401, 809, 972, 1130, 1235
HpyCH4V TGCA 7 cut(s) 242, 696, 835, 878, 1032, 1124, 1231
HpyF10VI GCNNNNNNNGC 4 cut(s) 305, 875, 1092, 1283
HpyF3I CTNAG 3 cut(s) 521, 558, 1071
HpySE526I ACGT 5 cut(s) 401, 809, 972, 1130, 1235
Hsp92I GRCGYC 1 cut(s) 809
Hsp92II CATG 8 cut(s) 130, 217, 308, 352, 727, 787, 1204, 1231
HspAI GCGC 2 cut(s) 452, 942
Ksp22I TGATCA 1 cut(s) 1101
Kzo9I GATC 7 cut(s) 177, 330, 345, 583, 640, 936, 1101
LmnI GCTCC 3 cut(s) 355, 496, 1429
Lsp1109I GCAGC 2 cut(s) 283, 862
LweI GCATC 3 cut(s) 676, 856, 1111
MaeI CTAG 1 cut(s) 87
MaeII ACGT 5 cut(s) 401, 809, 972, 1130, 1235
MaeIII GTNAC 3 cut(s) 709, 1009, 1336
MalI GATC 7 cut(s) 179, 332, 347, 585, 642, 938, 1103
MboI GATC 7 cut(s) 177, 330, 345, 583, 640, 936, 1101
MboII GAAGA 9 cut(s) 391, 875, 1076, 1081, 1186, 1313, 1389, 1394, 1409
MflI RGATCY 2 cut(s) 177, 640
MhlI GDGCHC 4 cut(s) 436, 493, 529, 1392
MlsI TGGCCA 2 cut(s) 5, 326
MluNI TGGCCA 2 cut(s) 5, 326
MlyI GAGTC 1 cut(s) 593
MmeI TCCRAC 1 cut(s) 123
Mox20I TGGCCA 2 cut(s) 5, 326
MroXI GAANNNNTTC 2 cut(s) 280, 1276
MscI TGGCCA 2 cut(s) 5, 326
MseI TTAA 7 cut(s) 294, 465, 986, 1043, 1352, 1400, 1413
MslI CAYNNNNRTG 1 cut(s) 840
Msp20I TGGCCA 2 cut(s) 5, 326
MspI CCGG 3 cut(s) 61, 174, 247
MspR9I CCNGG 3 cut(s) 61, 175, 430
Mva1269I GAATGC 1 cut(s) 878
MvaI CCWGG 1 cut(s) 430
MwoI GCNNNNNNNGC 4 cut(s) 305, 875, 1092, 1283
NciI CCSGG 2 cut(s) 61, 175
NdeI CATATG 1 cut(s) 841
NdeII GATC 7 cut(s) 177, 330, 345, 583, 640, 936, 1101
NlaIII CATG 8 cut(s) 130, 217, 308, 352, 727, 787, 1204, 1231
NlaIV GGNNCC 3 cut(s) 179, 642, 1431
NmuCI GTSAC 2 cut(s) 709, 1336
NspI RCATGY 1 cut(s) 1231
PaeI GCATGC 1 cut(s) 1231
PagI TCATGA 2 cut(s) 126, 213
PaqCI CACCTGC 1 cut(s) 1322
PceI AGGCCT 1 cut(s) 299
PcsI WCGNNNNNNNCGW 1 cut(s) 374
PctI GAATGC 1 cut(s) 878
PdmI GAANNNNTTC 2 cut(s) 280, 1276
PfeI GAWTC 5 cut(s) 219, 317, 385, 408, 1321
PinAI ACCGGT 1 cut(s) 246
PkrI GCNGC 4 cut(s) 265, 273, 505, 877
PleI GAGTC 1 cut(s) 593
PpsI GAGTC 1 cut(s) 593
Ppu21I YACGTR 2 cut(s) 1131, 1236
PsiI TTATAA 1 cut(s) 1250
Psp6I CCWGG 1 cut(s) 428
PspGI CCWGG 1 cut(s) 428
PspN4I GGNNCC 3 cut(s) 179, 642, 1431
PsrI GAACNNNNNNTAC 2 cut(s) 192, 224
PstNI CAGNNNCTG 1 cut(s) 1363
PsuI RGATCY 2 cut(s) 177, 640
RsaI GTAC 3 cut(s) 341, 926, 1199
RsaNI GTAC 3 cut(s) 340, 925, 1198
RseI CAYNNNNRTG 1 cut(s) 840
SaqAI TTAA 7 cut(s) 294, 465, 986, 1043, 1352, 1400, 1413
SatI GCNGC 4 cut(s) 264, 272, 504, 876
Sau3AI GATC 7 cut(s) 177, 330, 345, 583, 640, 936, 1101
SchI GAGTC 1 cut(s) 593
ScrFI CCNGG 3 cut(s) 61, 175, 430
SduI GDGCHC 4 cut(s) 436, 493, 529, 1392
SfaNI GCATC 3 cut(s) 676, 856, 1111
SfcI CTRYAG 2 cut(s) 610, 976
SmiMI CAYNNNNRTG 1 cut(s) 840
SnaBI TACGTA 1 cut(s) 1131
SphI GCATGC 1 cut(s) 1231
SseBI AGGCCT 1 cut(s) 299
SsiI CCGC 6 cut(s) 159, 263, 503, 627, 689, 1093
SspMI CTAG 1 cut(s) 87
StuI AGGCCT 1 cut(s) 299
StyD4I CCNGG 3 cut(s) 59, 173, 428
TaaI ACNGT 2 cut(s) 71, 1061
TaiI ACGT 5 cut(s) 404, 812, 975, 1133, 1238
TaqI TCGA 4 cut(s) 368, 1022, 1324, 1440
TatI WGTACW 2 cut(s) 924, 1197
TauI GCSGC 2 cut(s) 266, 506
TfiI GAWTC 5 cut(s) 219, 317, 385, 408, 1321
Tru1I TTAA 7 cut(s) 294, 465, 986, 1043, 1352, 1400, 1413
Tru9I TTAA 7 cut(s) 294, 465, 986, 1043, 1352, 1400, 1413
TseFI GTSAC 2 cut(s) 709, 1336
TseI GCWGC 2 cut(s) 271, 875
Tsp45I GTSAC 2 cut(s) 709, 1336
TspDTI ATGAA 4 cut(s) 65, 774, 1010, 1217
XapI RAATTY 6 cut(s) 114, 183, 496, 646, 997, 1394
XceI RCATGY 1 cut(s) 1231
XmiI GTMKAC 1 cut(s) 1133
XmnI GAANNNNTTC 2 cut(s) 280, 1276
XspI CTAG 1 cut(s) 87
ZraI GACGTC 1 cut(s) 810
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.