MD17G1234700.v1.1

Pentatricopeptide repeat-containing protein At2g13420, mitochondrial-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr17
OG0006370
Physical Location & Seq
Forward (+)
28366491 .. 28370040
3550 bp
Loading structure...
UTR
Exon/CDS
Intron
MD17G1234700.v1.1.491

Sequence Viewer

Length: 1578 bp
ATGATTTTTTCAGCACAAAGTCGCTCTTGCTCGTCCTTGCGTTGTTTCCAGTTATTCTCCTCTCATGGTAGTTTCCATTCAGTTCAAATCCGTCGTTCCTGCTCTTCATTCCCCAACCTTAATGACCCAAATGGAGACACAAAGGACGCTAATGATGCTGAGTTGATATCGAAAATCCTTGTCCACCACCATAATCCCTTCCACGCTATGGAGTCCTCTCTCCAACTCCACGGTATTACTCTCTCCTCCCAACTCGTCCACCACACCCTCCTCCGTCTCACCAATAATTCCAAGATTGCCCTTGCCTTCTTCCACTATGCCAAGTCCCTCCCCAACCCTCCTCTCACCACTGCCTCCTTCAACCTGCTCATTGACATCCTTGCCAAGGTCCGTCAGTATGACGTCGCTTGGCAGCTCATTGTTGAAATGGACAACTTCAACCTCACTCCCACTGCCACCACATTTCTTACCCTAATTCGCCGATTGATCTCCTCTGGCCTCACCCGCCAAGCCATTCGGGCCTTTGACGACATTGAAACCTTCGTCCAAACCAAGCCCAGTAGCCAAGATTTTTGCTTTTTGCTTGATACCCTTTGCAAATACGGTCATGTTAAGGTTGCAACAGAAGTTTTTAACAAAAAGAAGCATGAGTTTGTCCCTGATGTCAAAATGTACACTGTTTTGATCTATGGGTGGTGTAAGATTGGTCGTTTCGATATGGCAGAGAGATTCTTGAGGGATATGATTGAGCATAGTATTGAGCCCAATGTCGTTACATATAATGTCTTCCTGAATGGTATTTGTAGGCGTGCGAGTTTGCACCCTCAGGAAAGGTTTGAGAAGACGATAAGGAATGCAGAGAAGGTGTTTGAGGAAATGTGGAAGAGAGGGATTGAGCCCGATGTCACTAGTTTTTCGATTGTGCTTCATGTTTATAGCCGGGCACATAAGCCCGAGTTGTCGCTTGATAAGCTGAAGCTGATGAGGGAGAGAGGGATATTCCCCACAGTGGAAACTTACACTTCAGTTGTAAAGTGTCTTTGCTCGTGCGGGAGACTTGAGGATGCAGAGGAGTTGCTTGGTGAGATGGTGAGAAGTGGGGTTAGTCCATGTGCAGCTACGTATAATTGTTTCTTCAAAGAGTACAGGGGGAGAAAGAACGGGGAAGGTGCTTTGAAGTTGTACAGGAAGATGAAGGAGGATGGTTTCTGCGTGCCCAGTATGCACACTTATAACATATTGGTGGGAATGCTTTTGGAATTGAATCGAATGGAGATTGTGAAAGAAATATGGAATGATATGAAAGAGAGTGGGGTGGGACCAGATTTGGATTCGTATACTATGTTGATTCATGGGTTATGTGCAAAACAGAAGTGGAGGGAGGCTTGTCAGTTCTTTGTGGAGATGATAGAGAAGGGTCTTCTTCCTCAGAAGATTACTTTTGAGACACTCTACAAAGGGTTGATACAATCTGATATGTTGAGAACTTGGCGAAGATTGAAGAAGAAACTCGATGAAGAGTCTATTTCGTTTGGATCAGAGTTCCAAAAGTATCACCTTAAGCCATTTAGGAGATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
PPR PPR_2 PPR_3

Protein Analysis

526

Amino Acids

60.7

Weight (kDa)

8.87

Isoelectric Point (pI)

44.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 117 - 162 3.7e-07 PPR repeat family
PPR_3 PF13812 215 - 267 7.6e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 218 - 248 1.3e-06 PPR repeat
PPR_2 PF13041 220 - 269 2.8e-14 PPR repeat family
PPR_long PF17177 247 - 375 2.4e-09 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 283 - 312 9.8e-06 PPR repeat family
PPR_3 PF13812 288 - 345 2.5e-08 Pentatricopeptide repeat domain
PPR_2 PF13041 305 - 348 8e-06 PPR repeat family
TPR_24 PF23276 308 - 424 4.6e-06 Fungal tetratrico peptide repeats
PPR_1 PF12854 331 - 364 1.8e-10 PPR repeat
PPR_2 PF13041 335 - 381 6.2e-10 PPR repeat family
PPR PF01535 339 - 368 8.6e-08 PPR repeat
PPR_3 PF13812 359 - 417 7.5e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 370 - 418 3.2e-08 PPR repeat family
PPR_2 PF13041 406 - 454 7.4e-12 PPR repeat family
PPR_1 PF12854 438 - 469 6.1e-07 PPR repeat
PPR_2 PF13041 445 - 488 3.4e-09 PPR repeat family
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) 1233
AatII GACGTC 1 cut(s) 405
Acc36I ACCTGC 1 cut(s) 372
AccB7I CCANNNNNTGG 1 cut(s) 208
AccI GTMKAC 1 cut(s) 1337
AciI CCGC 2 cut(s) 505, 1050
AclWI GGATC 1 cut(s) 1543
AcuI CTGAAG 2 cut(s) 995, 1008
AcyI GRCGYC 1 cut(s) 402
AfaI GTAC 3 cut(s) 674, 1145, 1184
AfiI CCNNNNNNNGG 3 cut(s) 208, 385, 1009
AflII CTTAAG 1 cut(s) 1559
AgsI TTSAA 9 cut(s) 86, 361, 425, 439, 536, 1138, 1177, 1264, 1501
AhlI ACTAGT 1 cut(s) 908
AluBI AGCT 4 cut(s) 415, 973, 979, 1118
AluI AGCT 4 cut(s) 415, 973, 979, 1118
Alw26I GTCTC 4 cut(s) 129, 281, 1048, 1439
AlwI GGATC 1 cut(s) 1543
Ama87I CYCGRG 1 cut(s) 953
AoxI GGCC 2 cut(s) 496, 519
ApeKI GCWGC 2 cut(s) 412, 1115
AspS9I GGNCC 3 cut(s) 388, 519, 1319
AsuC2I CCSGG 1 cut(s) 941
AsuHPI GGTGA 6 cut(s) 271, 337, 493, 1094, 1102, 1547
AvaI CYCGRG 1 cut(s) 953
AvaII GGWCC 2 cut(s) 388, 1319
AxyI CCTNAGG 1 cut(s) 825
BaeGI GKGCMC 2 cut(s) 946, 1218
BanII GRGCYC 2 cut(s) 765, 900
BauI CACGAG 1 cut(s) 1045
BbsI GAAGAC 3 cut(s) 778, 848, 1412
BbvI GCAGC 2 cut(s) 424, 1127
BccI CCATC 2 cut(s) 1081, 1196
BcnI CCSGG 1 cut(s) 941
BcoDI GTCTC 4 cut(s) 129, 281, 1048, 1439
BcuI ACTAGT 1 cut(s) 908
BfaI CTAG 1 cut(s) 909
BfrI CTTAAG 1 cut(s) 1559
BfuAI ACCTGC 1 cut(s) 372
BglI GCCNNNNNGGC 1 cut(s) 518
BisI GCNGC 2 cut(s) 413, 1116
BlsI GCNGC 2 cut(s) 414, 1117
Bme1390I CCNGG 1 cut(s) 941
Bme18I GGWCC 2 cut(s) 388, 1319
BmeT110I CYCGRG 1 cut(s) 953
BmgT120I GGNCC 3 cut(s) 388, 519, 1319
BmiI GGNNCC 1 cut(s) 1320
BmrFI CCNGG 1 cut(s) 941
BmrI ACTGGG 2 cut(s) 552, 1212
BmsI GCATC 2 cut(s) 145, 1054
BmuI ACTGGG 2 cut(s) 552, 1212
BpiI GAAGAC 3 cut(s) 778, 848, 1412
BpuEI CTTGAG 2 cut(s) 754, 1079
BpuMI CCSGG 1 cut(s) 941
BsaAI YACGTR 1 cut(s) 1122
BsaHI GRCGYC 1 cut(s) 402
BsaJI CCNNGG 2 cut(s) 229, 384
Bsc4I CCNNNNNNNGG 3 cut(s) 208, 385, 1009
Bse1I ACTGG 3 cut(s) 49, 558, 1218
Bse21I CCTNAGG 1 cut(s) 825
BseDI CCNNGG 2 cut(s) 229, 384
BseGI GGATG 3 cut(s) 375, 1069, 1207
BseLI CCNNNNNNNGG 3 cut(s) 208, 385, 1009
BseMII CTCAG 3 cut(s) 150, 839, 1442
BseNI ACTGG 3 cut(s) 49, 558, 1218
BseRI GAGGAG 6 cut(s) 49, 235, 260, 330, 481, 1085
BseSI GKGCMC 2 cut(s) 946, 1218
BseXI GCAGC 2 cut(s) 424, 1127
BsgI GTGCAG 1 cut(s) 1134
BshFI GGCC 2 cut(s) 498, 521
BsiHKCI CYCGRG 1 cut(s) 953
BsiSI CCGG 1 cut(s) 940
BslFI GGGAC 3 cut(s) 310, 641, 1332
BslI CCNNNNNNNGG 3 cut(s) 208, 385, 1009
BsmAI GTCTC 4 cut(s) 129, 281, 1048, 1439
BsmBI CGTCTC 1 cut(s) 281
BsmFI GGGAC 3 cut(s) 310, 641, 1332
BsmI GAATGC 2 cut(s) 859, 1254
BsnI GGCC 2 cut(s) 498, 521
BsoBI CYCGRG 1 cut(s) 953
Bsp1286I GDGCHC 4 cut(s) 765, 900, 946, 1218
Bsp1407I TGTACA 2 cut(s) 672, 1182
Bsp143I GATC 3 cut(s) 486, 684, 1535
BspACI CCGC 2 cut(s) 505, 1050
BspANI GGCC 2 cut(s) 498, 521
BspCNI CTCAG 3 cut(s) 151, 838, 1441
BspLI GGNNCC 1 cut(s) 1320
BspMI ACCTGC 1 cut(s) 372
BspPI GGATC 1 cut(s) 1543
BspQI GCTCTTC 1 cut(s) 109
BspTI CTTAAG 1 cut(s) 1559
BsrGI TGTACA 2 cut(s) 672, 1182
BsrI ACTGG 3 cut(s) 49, 558, 1218
BssECI CCNNGG 2 cut(s) 229, 384
BssMI GATC 3 cut(s) 486, 684, 1535
BssNAI GTATAC 1 cut(s) 1338
BssNI GRCGYC 1 cut(s) 402
BssSI CACGAG 1 cut(s) 1045
BssT1I CCWWGG 1 cut(s) 384
Bst1107I GTATAC 1 cut(s) 1338
Bst2BI CACGAG 1 cut(s) 1045
Bst4CI ACNGT 4 cut(s) 233, 605, 679, 1009
Bst6I CTCTTC 3 cut(s) 109, 878, 1512
BstACI GRCGYC 1 cut(s) 402
BstAFI CTTAAG 1 cut(s) 1559
BstAUI TGTACA 2 cut(s) 672, 1182
BstBAI YACGTR 1 cut(s) 1122
BstC8I GCNNGC 2 cut(s) 810, 1214
BstDEI CTNAG 3 cut(s) 159, 825, 1428
BstDSI CCRYGG 1 cut(s) 229
BstENI CCTNNNNNAGG 1 cut(s) 383
BstF5I GGATG 3 cut(s) 375, 1069, 1207
BstKTI GATC 3 cut(s) 489, 687, 1538
BstMAI GTCTC 4 cut(s) 129, 281, 1048, 1439
BstMBI GATC 3 cut(s) 486, 684, 1535
BstMWI GCNNNNNNNGC 5 cut(s) 155, 504, 518, 970, 1222
BstSCI CCNGG 1 cut(s) 939
BstSLI GKGCMC 2 cut(s) 946, 1218
BstSNI TACGTA 1 cut(s) 1122
BstV1I GCAGC 2 cut(s) 424, 1127
BstV2I GAAGAC 3 cut(s) 778, 848, 1412
BstZ17I GTATAC 1 cut(s) 1338
Bsu36I CCTNAGG 1 cut(s) 825
BsuRI GGCC 2 cut(s) 498, 521
BtgI CCRYGG 1 cut(s) 229
BtsCI GGATG 3 cut(s) 375, 1069, 1207
BtsI GCAGTG 2 cut(s) 348, 450
BtsIMutI CAGTG 4 cut(s) 348, 450, 675, 1014
BveI ACCTGC 1 cut(s) 372
Cac8I GCNNGC 2 cut(s) 810, 1214
Cfr13I GGNCC 3 cut(s) 388, 519, 1319
CseI GACGC 1 cut(s) 155
Csp6I GTAC 3 cut(s) 673, 1144, 1183
CviAII CATG 6 cut(s) 65, 608, 647, 929, 1110, 1352
CviQI GTAC 3 cut(s) 673, 1144, 1183
DdeI CTNAG 3 cut(s) 159, 825, 1428
DpnI GATC 3 cut(s) 488, 686, 1537
DpnII GATC 3 cut(s) 486, 684, 1535
Eam1104I CTCTTC 3 cut(s) 109, 878, 1512
EarI CTCTTC 3 cut(s) 109, 878, 1512
Eco105I TACGTA 1 cut(s) 1122
Eco130I CCWWGG 1 cut(s) 384
Eco24I GRGCYC 2 cut(s) 765, 900
Eco32I GATATC 1 cut(s) 168
Eco47I GGWCC 2 cut(s) 388, 1319
Eco57I CTGAAG 2 cut(s) 995, 1008
Eco81I CCTNAGG 1 cut(s) 825
Eco88I CYCGRG 1 cut(s) 953
EcoNI CCTNNNNNAGG 1 cut(s) 383
EcoRV GATATC 1 cut(s) 168
EcoT14I CCWWGG 1 cut(s) 384
EcoT38I GRGCYC 2 cut(s) 765, 900
ErhI CCWWGG 1 cut(s) 384
Esp3I CGTCTC 1 cut(s) 281
FaeI CATG 6 cut(s) 68, 611, 650, 932, 1113, 1355
FalI AAGNNNNNCTT 2 cut(s) 10, 42
FaqI GGGAC 3 cut(s) 310, 641, 1332
FatI CATG 6 cut(s) 64, 607, 646, 928, 1109, 1351
FauI CCCGC 2 cut(s) 512, 1043
FblI GTMKAC 1 cut(s) 1337
Fnu4HI GCNGC 2 cut(s) 413, 1116
FokI GGATG 3 cut(s) 362, 1076, 1214
FriOI GRGCYC 2 cut(s) 765, 900
Fsp4HI GCNGC 2 cut(s) 413, 1116
FspBI CTAG 1 cut(s) 909
GluI GCNGC 2 cut(s) 413, 1116
HaeIII GGCC 2 cut(s) 498, 521
HapII CCGG 1 cut(s) 940
HgaI GACGC 1 cut(s) 155
Hin1I GRCGYC 1 cut(s) 402
Hin1II CATG 6 cut(s) 68, 611, 650, 932, 1113, 1355
HinfI GANTC 6 cut(s) 212, 729, 1264, 1331, 1348, 1520
HpaII CCGG 1 cut(s) 940
HphI GGTGA 6 cut(s) 271, 337, 493, 1094, 1102, 1547
Hpy166II GTNNAC 4 cut(s) 184, 259, 675, 1338
Hpy188I TCNGA 3 cut(s) 1431, 1474, 1540
Hpy188III TCNNGA 3 cut(s) 733, 790, 827
Hpy8I GTNNAC 4 cut(s) 184, 259, 675, 1338
Hpy99I CGWCG 2 cut(s) 96, 407
HpyAV CCTTC 8 cut(s) 208, 316, 367, 550, 856, 1160, 1189, 1408
HpyCH4III ACNGT 4 cut(s) 233, 605, 679, 1009
HpyCH4IV ACGT 2 cut(s) 402, 1121
HpyCH4V TGCA 8 cut(s) 597, 620, 820, 857, 1067, 1115, 1225, 1364
HpyF10VI GCNNNNNNNGC 5 cut(s) 155, 504, 518, 970, 1222
HpyF3I CTNAG 3 cut(s) 159, 825, 1428
HpySE526I ACGT 2 cut(s) 402, 1121
Hsp92I GRCGYC 1 cut(s) 402
Hsp92II CATG 6 cut(s) 68, 611, 650, 932, 1113, 1355
Kzo9I GATC 3 cut(s) 486, 684, 1535
LguI GCTCTTC 1 cut(s) 109
Lsp1109I GCAGC 2 cut(s) 424, 1127
LweI GCATC 2 cut(s) 145, 1054
MaeI CTAG 1 cut(s) 909
MaeII ACGT 2 cut(s) 402, 1121
MaeIII GTNAC 2 cut(s) 772, 904
MalI GATC 3 cut(s) 488, 686, 1537
MboI GATC 3 cut(s) 486, 684, 1535
MhlI GDGCHC 4 cut(s) 765, 900, 946, 1218
MluCI AATT 4 cut(s) 286, 474, 1126, 1259
MlyI GAGTC 2 cut(s) 221, 1529
MmeI TCCRAC 1 cut(s) 247
MseI TTAA 4 cut(s) 120, 612, 633, 1560
MslI CAYNNNNRTG 1 cut(s) 1241
MspCI CTTAAG 1 cut(s) 1559
MspI CCGG 1 cut(s) 940
MspR9I CCNGG 1 cut(s) 941
Mva1269I GAATGC 2 cut(s) 859, 1254
MwoI GCNNNNNNNGC 5 cut(s) 155, 504, 518, 970, 1222
NciI CCSGG 1 cut(s) 941
NdeII GATC 3 cut(s) 486, 684, 1535
NlaIII CATG 6 cut(s) 68, 611, 650, 932, 1113, 1355
NlaIV GGNNCC 1 cut(s) 1320
NmuCI GTSAC 1 cut(s) 904
PciSI GCTCTTC 1 cut(s) 109
PctI GAATGC 2 cut(s) 859, 1254
PfeI GAWTC 4 cut(s) 729, 1264, 1331, 1348
PflMI CCANNNNNTGG 1 cut(s) 208
PkrI GCNGC 2 cut(s) 414, 1117
PleI GAGTC 2 cut(s) 220, 1528
PpsI GAGTC 2 cut(s) 220, 1528
Ppu21I YACGTR 1 cut(s) 1122
PsiI TTATAA 1 cut(s) 1233
PspN4I GGNNCC 1 cut(s) 1320
PspPI GGNCC 3 cut(s) 388, 519, 1319
RsaI GTAC 3 cut(s) 674, 1145, 1184
RsaNI GTAC 3 cut(s) 673, 1144, 1183
RseI CAYNNNNRTG 1 cut(s) 1241
SapI GCTCTTC 1 cut(s) 109
SaqAI TTAA 4 cut(s) 120, 612, 633, 1560
SatI GCNGC 2 cut(s) 413, 1116
Sau3AI GATC 3 cut(s) 486, 684, 1535
Sau96I GGNCC 3 cut(s) 388, 519, 1319
SchI GAGTC 2 cut(s) 221, 1529
ScrFI CCNGG 1 cut(s) 941
SduI GDGCHC 4 cut(s) 765, 900, 946, 1218
SfaNI GCATC 2 cut(s) 145, 1054
SinI GGWCC 2 cut(s) 388, 1319
SmiMI CAYNNNNRTG 1 cut(s) 1241
SmlI CTYRAG 3 cut(s) 733, 1058, 1559
SmoI CTYRAG 3 cut(s) 733, 1058, 1559
SnaBI TACGTA 1 cut(s) 1122
SpeI ACTAGT 1 cut(s) 908
Sse9I AATT 4 cut(s) 286, 474, 1126, 1259
SsiI CCGC 2 cut(s) 505, 1050
SspMI CTAG 1 cut(s) 909
StyD4I CCNGG 1 cut(s) 939
StyI CCWWGG 1 cut(s) 384
TaaI ACNGT 4 cut(s) 233, 605, 679, 1009
TaiI ACGT 2 cut(s) 405, 1124
TaqI TCGA 5 cut(s) 170, 714, 917, 1267, 1512
TasI AATT 4 cut(s) 286, 474, 1126, 1259
TatI WGTACW 3 cut(s) 672, 1143, 1182
TfiI GAWTC 4 cut(s) 729, 1264, 1331, 1348
Tru1I TTAA 4 cut(s) 120, 612, 633, 1560
Tru9I TTAA 4 cut(s) 120, 612, 633, 1560
TscAI CASTG 4 cut(s) 355, 457, 682, 1014
TseFI GTSAC 1 cut(s) 904
TseI GCWGC 2 cut(s) 412, 1115
Tsp45I GTSAC 1 cut(s) 904
TspDTI ATGAA 6 cut(s) 96, 917, 1208, 1316, 1340, 1530
TspGWI ACGGA 3 cut(s) 80, 263, 380
TspRI CASTG 4 cut(s) 355, 457, 682, 1014
Van91I CCANNNNNTGG 1 cut(s) 208
Vha464I CTTAAG 1 cut(s) 1559
VpaK11BI GGWCC 2 cut(s) 388, 1319
XagI CCTNNNNNAGG 1 cut(s) 383
XmiI GTMKAC 1 cut(s) 1337
XspI CTAG 1 cut(s) 909
ZraI GACGTC 1 cut(s) 403
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.