MD10G1340500.v1.1

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr10
OG0003353
Physical Location & Seq
Forward (+)
41586647 .. 41588521
1875 bp
Loading structure...
UTR
Exon/CDS
Intron
MD10G1340500.v1.1.491

Sequence Viewer

Length: 1746 bp
ATGATATCGATGAGAACCTTGAGGAGGAGAAACTTGGAGGGAATCTATTGCCCTGTTCGAAACTATTACAGACATTTGTCAGCCATCGCCAATGGACCCCAAGAGTCCCCTGTAACTGTTGGGTCGGAGGCGGCGAGGGACGCGTACCCTCCACCTGTTCATGAAATCCTGCAAATTTGTGCAGGAACAGGTGCACCCGCGGAAGGGAAGGCCTGCCATGCACACATCATACGTTTCGGATTAACAGCAGACACATTAACCTCTAATATGCTCATCAACATGTACTCCAAATGTGGTTTACTTGATTGTGCCGGCAAGGTATTCGATGAAATGCCTGAAAGGAGCTTAGTTTCATGGAATACAATGATTGGGTCACTTGCTCGGAATGGGGAAGAACAAGAAGCTCTTGGTCTTTTCTTGCAGATGCAAAGACAAGGAAACACTTTCAGTGAGTTCACCGTTTCAAGTGTTCTTTGTGCTTGTGCAGTGAAATGCGCTGTGTTTGAGAGTAAACAACTGCATGCTCTTGCTGTTAAGTTAGCAATGAATTTAAATGTCTATGTGGGAACCGCATTGCTTGACGTTTATGCAAAGTCTGGTTTGATAAAGGATGCAAGCTCTGTTTTTGAGTCTTTGCCAGAGAGGAGTGATGTTACATGGAGTCTGGCAGCTCTCATTGAAGGAAAGCAGGTGCATGCTCTGTTATCTAAAACTGGCTTTGGTTCGAATATATTTATCGTTTCCTCTCTTATAGACATGTATGCAAAATGTGGTAGCATTAGAGAAGCGTACAGTGTGTTTGAAGGTATGAGCGAGAGGAACATTGTTTTATGGAACGCCATGATTTCAGGGTTCGCTAGACATGCTTGCTCCCTAGAGGTGATGATCTTATTTGAGAAAATGCAGCAGATGGGTATGTTCCCGAGCAAAGTAACCTATGCTTCGGTATTAACTGCCTGTAGTCATCTGGGACTAGTTGAAAGTGGAAAGAAATATTTCAACCTTATGATAGCAGAGCACAATGTGTCACCAAATGTTGTTCACTATTCATGCATGGTTGATATTTTAGGTCGGTCAGGGTTGATTATTGAAGCCTATGACTTGATACAGAAAATTCCGTTTGGTGTTACTGCTTCTATGTGGGGTTCTCTGTTGGCTTCTTGTAGGATCCATGGAAATCTTGACTTGGCCGAGGTCGCAGCAAAGCATTTGTCTGAGATAGAACCTAATAATGCAGGAAACCATATTTTGCTGTCAAATGTTTATGCAGCAAATAAGAAGTGGGAGGAAGTTGCGAGAACAAGGAAGATTCTTAAAGAAAGAGAGTTAAAGAAAGAGAGAGGGAAGAGTTGGATTGAAATAAAGGACAAAGTTCACTCATTTATGGTTGGAGAGAGGAAGCATGCTAGAATTGATGAGATATATTCAAAGTTGGACGATTTGGTGACAGAATTGAAGATAATGGGGTACAAGGCTGAGACTGAACATGACCTTCATTGCGTGGGTGAAAGCAGAAAGCATGAACTTTTGAGGCACCACAGTGAGAAACTTGCTCTTACTTTTGGGTTGATGTGCTTACCTTCCAATGCTCCTATCAGGATCATAAAGAATCTTAGGATTTGTGTTGATTGCCATGCTTTTATGAAGATTAGTTCAAGTTGTAGGGGAAGGGAAATCATCGTTAGGGATACAAACAGGTTTCACCATTTCAAGAATGGTTATTGTTCTTGTGGGGAATTTTGGTGA

Protein Analysis

582

Amino Acids

64.83

Weight (kDa)

8.38

Isoelectric Point (pI)

47.78

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 115 - 162 5.4e-08 PPR repeat family
PPR PF01535 117 - 146 2.8e-07 PPR repeat
PPR_2 PF13041 273 - 321 6.4e-09 PPR repeat family
E_motif PF20431 391 - 453 2.5e-18 E motif
DYW_deaminase PF14432 489 - 581 9.7e-37 DYW family of nucleic acid deaminases
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)
AarI CACCTGC 1 cut(s) 679
Acc36I ACCTGC 1 cut(s) 679
AccB1I GGYRCC 1 cut(s) 1533
AccII CGCG 2 cut(s) 143, 200
AciI CCGC 4 cut(s) 131, 198, 200, 570
AclWI GGATC 3 cut(s) 1162, 1175, 1607
AcoI YGGCCR 1 cut(s) 1188
AcsI RAATTY 4 cut(s) 174, 547, 1113, 1736
AdeI CACNNNGTG 1 cut(s) 1024
AfaI GTAC 4 cut(s) 146, 284, 791, 1469
AfiI CCNNNNNNNGG 3 cut(s) 24, 203, 204
AflIII ACRYGT 3 cut(s) 141, 279, 756
AhlI ACTAGT 1 cut(s) 973
AleI CACNNNNGTG 1 cut(s) 1539
AluBI AGCT 4 cut(s) 345, 404, 618, 671
AluI AGCT 4 cut(s) 345, 404, 618, 671
Alw21I GWGCWC 2 cut(s) 196, 1020
Alw26I GTCTC 1 cut(s) 1472
Alw44I GTGCAC 1 cut(s) 192
AlwI GGATC 3 cut(s) 1162, 1175, 1607
Ama87I CYCGRG 1 cut(s) 922
AoxI GGCC 2 cut(s) 210, 1188
ApaLI GTGCAC 1 cut(s) 192
ApeKI GCWGC 4 cut(s) 668, 904, 1199, 1268
ApoI RAATTY 4 cut(s) 174, 547, 1113, 1736
ArsI GACNNNNNNTTYG 2 cut(s) 1196, 1228
Asp700I GAANNNNTTC 1 cut(s) 995
AspLEI GCGC 1 cut(s) 497
AspS9I GGNCC 1 cut(s) 95
AsuHPI GGTGA 6 cut(s) 448, 892, 1020, 1456, 1517, 1694
AsuII TTCGAA 2 cut(s) 58, 725
AvaI CYCGRG 1 cut(s) 922
AvaII GGWCC 1 cut(s) 95
BaeGI GKGCMC 1 cut(s) 196
BamHI GGATCC 1 cut(s) 1167
BanI GGYRCC 1 cut(s) 1533
Bbv12I GWGCWC 2 cut(s) 196, 1020
BbvI GCAGC 4 cut(s) 680, 916, 1211, 1280
BccI CCATC 2 cut(s) 92, 904
BcgI CGANNNNNNTGC 2 cut(s) 304, 338
BciVI GTATCC 1 cut(s) 1681
BcoDI GTCTC 1 cut(s) 1472
BcuI ACTAGT 1 cut(s) 973
BfaI CTAG 4 cut(s) 858, 875, 974, 1407
BfmI CTRYAG 1 cut(s) 958
BfuAI ACCTGC 1 cut(s) 679
BfuI GTATCC 1 cut(s) 1681
BisI GCNGC 5 cut(s) 132, 669, 905, 1200, 1269
BlsI GCNGC 5 cut(s) 133, 670, 906, 1201, 1270
Bme18I GGWCC 1 cut(s) 95
BmeT110I CYCGRG 1 cut(s) 922
BmgT120I GGNCC 1 cut(s) 95
BmiI GGNNCC 4 cut(s) 97, 568, 1169, 1535
BmsI GCATC 2 cut(s) 414, 601
BoxI GACNNNNGTC 1 cut(s) 76
Bpu14I TTCGAA 2 cut(s) 58, 725
BpuEI CTTGAG 1 cut(s) 40
Bsa29I ATCGAT 1 cut(s) 8
BsaJI CCNNGG 3 cut(s) 198, 1171, 1191
BsaXI ACNNNNNCTCC 2 cut(s) 269, 299
Bsc4I CCNNNNNNNGG 3 cut(s) 24, 203, 204
Bse118I RCCGGY 1 cut(s) 311
Bse1I ACTGG 1 cut(s) 718
Bse3DI GCAATG 3 cut(s) 549, 572, 1495
BseCI ATCGAT 1 cut(s) 8
BseDI CCNNGG 3 cut(s) 198, 1171, 1191
BseGI GGATG 1 cut(s) 616
BseLI CCNNNNNNNGG 3 cut(s) 24, 203, 204
BseMI GCAATG 3 cut(s) 549, 572, 1495
BseMII CTCAG 2 cut(s) 1206, 1467
BseNI ACTGG 1 cut(s) 718
BseRI GAGGAG 3 cut(s) 37, 40, 658
BseSI GKGCMC 1 cut(s) 196
BseXI GCAGC 4 cut(s) 680, 916, 1211, 1280
BsgI GTGCAG 2 cut(s) 201, 504
Bsh1236I CGCG 2 cut(s) 143, 200
BshFI GGCC 2 cut(s) 212, 1190
BshNI GGYRCC 1 cut(s) 1533
BshVI ATCGAT 1 cut(s) 8
BsiHKAI GWGCWC 2 cut(s) 196, 1020
BsiHKCI CYCGRG 1 cut(s) 922
BsiSI CCGG 1 cut(s) 312
BslFI GGGAC 3 cut(s) 91, 152, 984
BslI CCNNNNNNNGG 3 cut(s) 24, 203, 204
BsmAI GTCTC 1 cut(s) 1472
BsmFI GGGAC 3 cut(s) 91, 152, 984
BsnI GGCC 2 cut(s) 212, 1190
BsoBI CYCGRG 1 cut(s) 922
Bsp119I TTCGAA 2 cut(s) 58, 725
Bsp1286I GDGCHC 2 cut(s) 196, 1020
Bsp143I GATC 3 cut(s) 885, 1167, 1599
Bsp19I CCATGG 1 cut(s) 1171
BspACI CCGC 4 cut(s) 131, 198, 200, 570
BspANI GGCC 2 cut(s) 212, 1190
BspCNI CTCAG 2 cut(s) 1207, 1468
BspDI ATCGAT 1 cut(s) 8
BspFNI CGCG 2 cut(s) 143, 200
BspHI TCATGA 1 cut(s) 160
BspLI GGNNCC 4 cut(s) 97, 568, 1169, 1535
BspMI ACCTGC 1 cut(s) 679
BspPI GGATC 3 cut(s) 1162, 1175, 1607
BspT104I TTCGAA 2 cut(s) 58, 725
BspT107I GGYRCC 1 cut(s) 1533
BsrDI GCAATG 3 cut(s) 549, 572, 1495
BsrFI RCCGGY 1 cut(s) 311
BsrI ACTGG 1 cut(s) 718
BssAI RCCGGY 1 cut(s) 311
BssECI CCNNGG 3 cut(s) 198, 1171, 1191
BssMI GATC 3 cut(s) 885, 1167, 1599
BssT1I CCWWGG 1 cut(s) 1171
Bst4CI ACNGT 4 cut(s) 118, 460, 794, 1541
Bst6I CTCTTC 1 cut(s) 1340
BstBI TTCGAA 2 cut(s) 58, 725
BstC8I GCNNGC 7 cut(s) 214, 313, 522, 616, 696, 868, 1404
BstDEI CTNAG 4 cut(s) 346, 1215, 1476, 1613
BstDSI CCRYGG 2 cut(s) 198, 1171
BstENI CCTNNNNNAGG 1 cut(s) 22
BstF5I GGATG 1 cut(s) 616
BstFNI CGCG 2 cut(s) 143, 200
BstHHI GCGC 1 cut(s) 497
BstKTI GATC 3 cut(s) 888, 1170, 1602
BstMAI GTCTC 1 cut(s) 1472
BstMBI GATC 3 cut(s) 885, 1167, 1599
BstMWI GCNNNNNNNGC 4 cut(s) 140, 218, 863, 1196
BstNSI RCATGY 6 cut(s) 283, 524, 698, 760, 866, 1406
BstPAI GACNNNNGTC 1 cut(s) 76
BstSFI CTRYAG 1 cut(s) 958
BstSLI GKGCMC 1 cut(s) 196
BstUI CGCG 2 cut(s) 143, 200
BstV1I GCAGC 4 cut(s) 680, 916, 1211, 1280
BstX2I RGATCY 1 cut(s) 1167
BstYI RGATCY 1 cut(s) 1167
Bsu15I ATCGAT 1 cut(s) 8
BsuI GTATCC 1 cut(s) 1681
BsuRI GGCC 2 cut(s) 212, 1190
BsuTUI ATCGAT 1 cut(s) 8
BtgI CCRYGG 2 cut(s) 198, 1171
BtgZI GCGATG 1 cut(s) 70
BtsCI GGATG 1 cut(s) 616
BtsI GCAGTG 1 cut(s) 492
BtsIMutI CAGTG 4 cut(s) 454, 492, 799, 1546
BveI ACCTGC 1 cut(s) 679
Cac8I GCNNGC 7 cut(s) 214, 313, 522, 616, 696, 868, 1404
CciI TCATGA 1 cut(s) 160
CfoI GCGC 1 cut(s) 497
Cfr10I RCCGGY 1 cut(s) 311
Cfr13I GGNCC 1 cut(s) 95
Cfr42I CCGCGG 1 cut(s) 201
ClaI ATCGAT 1 cut(s) 8
CseI GACGC 1 cut(s) 149
Csp6I GTAC 4 cut(s) 145, 283, 790, 1468
CviQI GTAC 4 cut(s) 145, 283, 790, 1468
DdeI CTNAG 4 cut(s) 346, 1215, 1476, 1613
DpnI GATC 3 cut(s) 887, 1169, 1601
DpnII GATC 3 cut(s) 885, 1167, 1599
DraI TTTAAA 1 cut(s) 552
DraIII CACNNNGTG 1 cut(s) 1024
EaeI YGGCCR 1 cut(s) 1188
Eam1104I CTCTTC 1 cut(s) 1340
EarI CTCTTC 1 cut(s) 1340
Eco130I CCWWGG 1 cut(s) 1171
Eco147I AGGCCT 1 cut(s) 212
Eco32I GATATC 1 cut(s) 6
Eco47I GGWCC 1 cut(s) 95
Eco88I CYCGRG 1 cut(s) 922
EcoNI CCTNNNNNAGG 1 cut(s) 22
EcoRV GATATC 1 cut(s) 6
EcoT14I CCWWGG 1 cut(s) 1171
EcoT22I ATGCAT 1 cut(s) 1055
ErhI CCWWGG 1 cut(s) 1171
FalI AAGNNNNNCTT 2 cut(s) 390, 422
FaqI GGGAC 3 cut(s) 91, 152, 984
FauI CCCGC 1 cut(s) 205
Fnu4HI GCNGC 5 cut(s) 132, 669, 905, 1200, 1269
FokI GGATG 1 cut(s) 623
Fsp4HI GCNGC 5 cut(s) 132, 669, 905, 1200, 1269
FspBI CTAG 4 cut(s) 858, 875, 974, 1407
GlaI GCGC 1 cut(s) 496
GluI GCNGC 5 cut(s) 132, 669, 905, 1200, 1269
HaeIII GGCC 2 cut(s) 212, 1190
HapII CCGG 1 cut(s) 312
HgaI GACGC 1 cut(s) 149
HhaI GCGC 1 cut(s) 497
Hin6I GCGC 1 cut(s) 495
HinP1I GCGC 1 cut(s) 495
HinfI GANTC 6 cut(s) 42, 104, 629, 661, 1309, 1609
HpaII CCGG 1 cut(s) 312
HphI GGTGA 6 cut(s) 448, 892, 1020, 1456, 1517, 1694
Hpy166II GTNNAC 6 cut(s) 194, 299, 456, 512, 1042, 1375
Hpy188I TCNGA 4 cut(s) 127, 239, 384, 1216
Hpy188III TCNNGA 5 cut(s) 161, 922, 1181, 1597, 1711
Hpy8I GTNNAC 6 cut(s) 194, 299, 456, 512, 1042, 1375
HpyAV CCTTC 7 cut(s) 197, 202, 674, 797, 1502, 1590, 1662
HpyCH4III ACNGT 4 cut(s) 118, 460, 794, 1541
HpyCH4IV ACGT 2 cut(s) 232, 582
HpyF10VI GCNNNNNNNGC 4 cut(s) 140, 218, 863, 1196
HpyF3I CTNAG 4 cut(s) 346, 1215, 1476, 1613
HpySE526I ACGT 2 cut(s) 232, 582
HspAI GCGC 1 cut(s) 495
KroI GCCGGC 1 cut(s) 311
KroNI GCCGGC 1 cut(s) 313
KspI CCGCGG 1 cut(s) 201
Kzo9I GATC 3 cut(s) 885, 1167, 1599
LmnI GCTCC 3 cut(s) 342, 875, 1594
Lsp1109I GCAGC 4 cut(s) 680, 916, 1211, 1280
LweI GCATC 2 cut(s) 414, 601
MaeI CTAG 4 cut(s) 858, 875, 974, 1407
MaeII ACGT 2 cut(s) 232, 582
MaeIII GTNAC 7 cut(s) 112, 372, 652, 931, 1026, 1126, 1444
MalI GATC 3 cut(s) 887, 1169, 1601
MboI GATC 3 cut(s) 885, 1167, 1599
MboII GAAGA 5 cut(s) 404, 1318, 1357, 1468, 1657
MflI RGATCY 1 cut(s) 1167
MhlI GDGCHC 2 cut(s) 196, 1020
MluCI AATT 6 cut(s) 174, 547, 1113, 1410, 1451, 1736
MluI ACGCGT 1 cut(s) 141
MlyI GAGTC 3 cut(s) 113, 638, 670
MmeI TCCRAC 4 cut(s) 105, 1331, 1369, 1413
Mph1103I ATGCAT 1 cut(s) 1055
MroNI GCCGGC 1 cut(s) 311
MroXI GAANNNNTTC 1 cut(s) 995
MseI TTAA 7 cut(s) 242, 257, 534, 551, 950, 1314, 1328
MslI CAYNNNNRTG 2 cut(s) 278, 1539
MspA1I CMGCKG 1 cut(s) 200
MspI CCGG 1 cut(s) 312
MvnI CGCG 2 cut(s) 143, 200
MwoI GCNNNNNNNGC 4 cut(s) 140, 218, 863, 1196
NaeI GCCGGC 1 cut(s) 313
NcoI CCATGG 1 cut(s) 1171
NdeII GATC 3 cut(s) 885, 1167, 1599
NgoMIV GCCGGC 1 cut(s) 311
NlaIV GGNNCC 4 cut(s) 97, 568, 1169, 1535
NmeAIII GCCGAG 1 cut(s) 1216
NmuCI GTSAC 3 cut(s) 372, 1026, 1444
NsiI ATGCAT 1 cut(s) 1055
NspI RCATGY 6 cut(s) 283, 524, 698, 760, 866, 1406
NspV TTCGAA 2 cut(s) 58, 725
OliI CACNNNNGTG 1 cut(s) 1539
PaeI GCATGC 3 cut(s) 524, 698, 1406
PagI TCATGA 1 cut(s) 160
PaqCI CACCTGC 1 cut(s) 679
PceI AGGCCT 1 cut(s) 212
PciI ACATGT 2 cut(s) 279, 756
PcsI WCGNNNNNNNCGW 1 cut(s) 131
PdiI GCCGGC 1 cut(s) 313
PdmI GAANNNNTTC 1 cut(s) 995
PfeI GAWTC 3 cut(s) 42, 1309, 1609
PkrI GCNGC 5 cut(s) 133, 670, 906, 1201, 1270
PleI GAGTC 3 cut(s) 112, 637, 669
PpsI GAGTC 3 cut(s) 112, 637, 669
PscI ACATGT 2 cut(s) 279, 756
PshAI GACNNNNGTC 1 cut(s) 76
PspN4I GGNNCC 4 cut(s) 97, 568, 1169, 1535
PspPI GGNCC 1 cut(s) 95
PsuI RGATCY 1 cut(s) 1167
RsaI GTAC 4 cut(s) 146, 284, 791, 1469
RsaNI GTAC 4 cut(s) 145, 283, 790, 1468
RseI CAYNNNNRTG 2 cut(s) 278, 1539
SacII CCGCGG 1 cut(s) 201
SaqAI TTAA 7 cut(s) 242, 257, 534, 551, 950, 1314, 1328
SatI GCNGC 5 cut(s) 132, 669, 905, 1200, 1269
Sau3AI GATC 3 cut(s) 885, 1167, 1599
Sau96I GGNCC 1 cut(s) 95
SchI GAGTC 3 cut(s) 113, 638, 670
SduI GDGCHC 2 cut(s) 196, 1020
SfaNI GCATC 2 cut(s) 414, 601
SfcI CTRYAG 1 cut(s) 958
Sfr303I CCGCGG 1 cut(s) 201
SfuI TTCGAA 2 cut(s) 58, 725
SgrBI CCGCGG 1 cut(s) 201
SinI GGWCC 1 cut(s) 95
SmiI ATTTAAAT 1 cut(s) 552
SmiMI CAYNNNNRTG 2 cut(s) 278, 1539
SmlI CTYRAG 1 cut(s) 19
SmoI CTYRAG 1 cut(s) 19
SpeI ACTAGT 1 cut(s) 973
SphI GCATGC 3 cut(s) 524, 698, 1406
Sse9I AATT 6 cut(s) 174, 547, 1113, 1410, 1451, 1736
SseBI AGGCCT 1 cut(s) 212
SsiI CCGC 4 cut(s) 131, 198, 200, 570
SspI AATATT 1 cut(s) 995
SspMI CTAG 4 cut(s) 858, 875, 974, 1407
StuI AGGCCT 1 cut(s) 212
StyI CCWWGG 1 cut(s) 1171
SwaI ATTTAAAT 1 cut(s) 552
TaaI ACNGT 4 cut(s) 118, 460, 794, 1541
TaiI ACGT 2 cut(s) 235, 585
TaqI TCGA 4 cut(s) 8, 58, 324, 725
TaqII GACCGA 1 cut(s) 1062
TasI AATT 6 cut(s) 174, 547, 1113, 1410, 1451, 1736
TatI WGTACW 1 cut(s) 282
TauI GCSGC 1 cut(s) 134
TfiI GAWTC 3 cut(s) 42, 1309, 1609
Tru1I TTAA 7 cut(s) 242, 257, 534, 551, 950, 1314, 1328
Tru9I TTAA 7 cut(s) 242, 257, 534, 551, 950, 1314, 1328
TscAI CASTG 4 cut(s) 454, 492, 799, 1546
TseFI GTSAC 3 cut(s) 372, 1026, 1444
TseI GCWGC 4 cut(s) 668, 904, 1199, 1268
Tsp45I GTSAC 3 cut(s) 372, 1026, 1444
TspDTI ATGAA 9 cut(s) 149, 177, 342, 342, 560, 1038, 1484, 1536, 1658
TspGWI ACGGA 1 cut(s) 1107
TspRI CASTG 4 cut(s) 454, 492, 799, 1546
VneI GTGCAC 1 cut(s) 192
VpaK11BI GGWCC 1 cut(s) 95
XagI CCTNNNNNAGG 1 cut(s) 22
XapI RAATTY 4 cut(s) 174, 547, 1113, 1736
XceI RCATGY 6 cut(s) 283, 524, 698, 760, 866, 1406
XcmI CCANNNNNNNNNTGG 1 cut(s) 1712
XmnI GAANNNNTTC 1 cut(s) 995
XspI CTAG 4 cut(s) 858, 875, 974, 1407
Zsp2I ATGCAT 1 cut(s) 1055
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.