MD09G1093700.v1.1

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr09
OG0013453
Physical Location & Seq
Forward (+)
6844805 .. 6846097
1293 bp
Loading structure...
UTR
Exon/CDS
Intron
MD09G1093700.v1.1.491

Sequence Viewer

Length: 1293 bp
ATGGGGTCCTACAACCATTCAAACTTCCAACGGTTGCTTTCTTTCACCAAGCTCTTAACCTCCTACGTCAGCCAAGGCCGTCATGACAAAGCCCTTTCGCTCTTCCACCACATGCAGACCTCACTGGCCCTTTCTCTCGACCCCCATGTTTTCTCTCTTGTTCTCAAGTCCTGCTCCGCCGTCCACCGCCCGCAACTCGGCGTCTCCGTCCATGCCCATGTCACCAAATCTTCCATCCTATCAAACCCATTTGTGGCTTCCGCTCTCGTCGACATGTATGGCAAGTGCGTGTCATTGTCGACCGCACGCAACCTGTTTGATGAAATTCCTCACAGGAACGTTGTTGTGTGGAATGCTATTGTATCGGTTTATACGCGTAACGGTAATGTGTTTGGTGCTTTGAGATTGTTTGACGCAATGGATGTTGAACCTGATGTGTCAACTTTTAATACCATTATATCTGGGATGTCGGGATTGGATGATGGGTCGTTTAAGGCTGTCGAGTTCTATAGGAAAATGACAGTGCGTGGATGGAAACCGGATTTAATAACACTGCTTGCTCTGTTACGTGCTTTTGTTGGTGTAGCGGCTTTAAGGTTTATTAAGGAAATTCATGGTTATGATGTGAGAAATGAGATTGACTCGCATTCCCAATTGAGTAGTGGCCTAGTTGAGGCCTACGGGCGTTGTGGTTGTCTCACAAATGCGTGTAATCTGTTCCGCTATATGAAAAAAAAGGATGTGGTTGCATGGAGTAGTCTGATATCTGCGTATGCACTTCATGGGGAGGCAAGAGCTGCATTGGAAATTTTCCGTGAGATGGAATTGGCGAAAGTAGAGCCTGATGAGATTACTTTTCTTGCAGTACTGAAGGCTTGCAGCCATGCTGAAGGATTAGCAGATGAAGTACTGCATTATTTTGGTCGGATGCGTGAGGATTATGGTGTGCAAGCAAATAGTGATCACTATTCTTGTTTAGTAGATGTTCTGAGCAGAGCAGGGAGGTTGCATGAGGCATATGAGGTCATAAGGAAAATGCCGGTGAAGGTTACCGTTAAAGCTTGGGGTGCTCTTCTTTCAGCATGTAGAACTTACGGAGACTTGGAGCTTGCTGAGATTGCAGGGAAAGCTCTGTCCGAAATTGAGCCTGATAATCCTGCCAATTATTTACTATTGGCAAGAATATATTCTGGCTTAGGAAGGCACGAGGAAGCGGAACAAATGAGAAGGGAAATGAAAAAGAAGGGAGTGAAGGCATCATCTGGAACTAGTTGGGTGCTTTATCAAGACTAG

Protein Analysis

431

Amino Acids

47.88

Weight (kDa)

8.05

Isoelectric Point (pI)

33.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 112 - 156 9.7e-09 PPR repeat family
PPR_2 PF13041 144 - 192 2e-06 PPR repeat family
PPR_2 PF13041 246 - 294 4.7e-10 PPR repeat family
PPR_3 PF13812 246 - 293 1.3e-07 Pentatricopeptide repeat domain
PPR PF01535 249 - 275 6.1e-06 PPR repeat
PPR_long PF17177 262 - 367 3.1e-06 Pentacotripeptide-repeat region of PRORP
E_motif PF20431 365 - 426 1e-16 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: OG0013453)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G03510
fragaria_vesca FvH4_6g44770
malus_domestica MD09G1093700.v1.1 MD17G1083400.v1.1
prunus_persica Prupe.3G231700_v2.0.a1
pyrus_communis pycom09g01890 pycom17g08120
rosa_chinensis RchiOBHm_Chr2g0161921
rosa_laevigata RLG00000021307
rosa_multiflora Rmu_sc0008565.1_g000004 Rmu_sc0018381.1_g000006
rosa_roxburghii Rroxscaffold_2G00088460
rosa_rugosa Rorug02G0493200
rosa_samantha Rh2AG559100 Rh2BG572500 Rh2CG542800 Rh2DG582300
rosa_wichuraiana Rw2G046280

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 263
AccI GTMKAC 2 cut(s) 270, 299
AccII CGCG 1 cut(s) 376
AciI CCGC 8 cut(s) 177, 187, 191, 261, 303, 587, 721, 1214
AclI AACGTT 1 cut(s) 339
AcsI RAATTY 3 cut(s) 324, 609, 807
AcuI CTGAAG 2 cut(s) 890, 909
AcyI GRCGYC 1 cut(s) 201
AfaI GTAC 2 cut(s) 867, 909
AfiI CCNNNNNNNGG 4 cut(s) 197, 253, 673, 820
AflIII ACRYGT 2 cut(s) 273, 374
AgsI TTSAA 2 cut(s) 21, 428
AhlI ACTAGT 1 cut(s) 1268
AluBI AGCT 5 cut(s) 52, 797, 1061, 1108, 1130
AluI AGCT 5 cut(s) 52, 797, 1061, 1108, 1130
Alw21I GWGCWC 1 cut(s) 1072
Alw26I GTCTC 3 cut(s) 208, 701, 1092
AoxI GGCC 4 cut(s) 76, 126, 664, 675
ApeKI GCWGC 2 cut(s) 797, 879
ApoI RAATTY 3 cut(s) 324, 609, 807
Asp700I GAANNNNTTC 1 cut(s) 1186
AspS9I GGNCC 2 cut(s) 6, 127
AsuHPI GGTGA 3 cut(s) 37, 214, 1054
AvaII GGWCC 1 cut(s) 6
BauI CACGAG 1 cut(s) 1205
Bbv12I GWGCWC 1 cut(s) 1072
BbvI GCAGC 2 cut(s) 784, 891
BccI CCATC 4 cut(s) 242, 476, 525, 814
BceAI ACGGC 2 cut(s) 63, 164
BclI TGATCA 1 cut(s) 961
BcoDI GTCTC 3 cut(s) 208, 701, 1092
BcuI ACTAGT 1 cut(s) 1268
BfaI CTAG 3 cut(s) 668, 1269, 1291
BfmI CTRYAG 1 cut(s) 508
BisI GCNGC 3 cut(s) 588, 798, 880
BlsI GCNGC 3 cut(s) 589, 799, 881
BmcAI AGTACT 2 cut(s) 867, 909
Bme18I GGWCC 1 cut(s) 6
BmgT120I GGNCC 2 cut(s) 6, 127
BmiI GGNNCC 1 cut(s) 7
BmsI GCATC 2 cut(s) 918, 1265
BplI GAGNNNNNCTC 2 cut(s) 626, 658
Bpu10I CCTNAGC 1 cut(s) 1195
BpuEI CTTGAG 1 cut(s) 149
BsaAI YACGTR 1 cut(s) 569
BsaHI GRCGYC 1 cut(s) 201
BsaJI CCNNGG 1 cut(s) 73
BsaWI WCCGGW 1 cut(s) 538
Bsc4I CCNNNNNNNGG 4 cut(s) 197, 253, 673, 820
Bse118I RCCGGY 1 cut(s) 1039
Bse1I ACTGG 1 cut(s) 129
Bse3DI GCAATG 1 cut(s) 423
BseDI CCNNGG 1 cut(s) 73
BseGI GGATG 7 cut(s) 234, 427, 471, 484, 536, 745, 933
BseLI CCNNNNNNNGG 4 cut(s) 197, 253, 673, 820
BseMI GCAATG 1 cut(s) 423
BseMII CTCAG 2 cut(s) 980, 1104
BseNI ACTGG 1 cut(s) 129
BseXI GCAGC 2 cut(s) 784, 891
Bsh1236I CGCG 1 cut(s) 376
Bsh1285I CGRYCG 1 cut(s) 303
BshFI GGCC 4 cut(s) 78, 128, 666, 677
BsiEI CGRYCG 1 cut(s) 303
BsiHKAI GWGCWC 1 cut(s) 1072
BsiSI CCGG 2 cut(s) 539, 1040
BslI CCNNNNNNNGG 4 cut(s) 197, 253, 673, 820
BsmAI GTCTC 3 cut(s) 208, 701, 1092
BsmBI CGTCTC 1 cut(s) 208
BsmI GAATGC 2 cut(s) 358, 646
BsnI GGCC 4 cut(s) 78, 128, 666, 677
Bsp1286I GDGCHC 1 cut(s) 1072
Bsp143I GATC 1 cut(s) 961
BspACI CCGC 8 cut(s) 177, 187, 191, 261, 303, 587, 721, 1214
BspANI GGCC 4 cut(s) 78, 128, 666, 677
BspCNI CTCAG 2 cut(s) 981, 1105
BspFNI CGCG 1 cut(s) 376
BspHI TCATGA 1 cut(s) 82
BspLI GGNNCC 1 cut(s) 7
BspQI GCTCTTC 2 cut(s) 107, 1077
BsrBI CCGCTC 1 cut(s) 263
BsrDI GCAATG 1 cut(s) 423
BsrFI RCCGGY 1 cut(s) 1039
BsrI ACTGG 1 cut(s) 129
BssAI RCCGGY 1 cut(s) 1039
BssECI CCNNGG 1 cut(s) 73
BssMI GATC 1 cut(s) 961
BssNI GRCGYC 1 cut(s) 201
BssSI CACGAG 1 cut(s) 1205
BssT1I CCWWGG 1 cut(s) 73
Bst2BI CACGAG 1 cut(s) 1205
Bst4CI ACNGT 4 cut(s) 33, 383, 523, 1054
Bst6I CTCTTC 2 cut(s) 107, 1077
BstACI GRCGYC 1 cut(s) 201
BstAPI GCANNNNNTGC 1 cut(s) 797
BstBAI YACGTR 1 cut(s) 569
BstC8I GCNNGC 6 cut(s) 191, 307, 558, 877, 951, 1110
BstDEI CTNAG 3 cut(s) 989, 1113, 1195
BstEII GGTNACC 1 cut(s) 1048
BstENI CCTNNNNNAGG 1 cut(s) 671
BstF5I GGATG 7 cut(s) 234, 427, 471, 484, 536, 745, 933
BstFNI CGCG 1 cut(s) 376
BstKTI GATC 1 cut(s) 964
BstMAI GTCTC 3 cut(s) 208, 701, 1092
BstMBI GATC 1 cut(s) 961
BstMCI CGRYCG 1 cut(s) 303
BstMWI GCNNNNNNNGC 4 cut(s) 797, 1067, 1118, 1127
BstNSI RCATGY 3 cut(s) 115, 277, 1086
BstPI GGTNACC 1 cut(s) 1048
BstSFI CTRYAG 1 cut(s) 508
BstUI CGCG 1 cut(s) 376
BstV1I GCAGC 2 cut(s) 784, 891
BsuRI GGCC 4 cut(s) 78, 128, 666, 677
BtsCI GGATG 7 cut(s) 234, 427, 471, 484, 536, 745, 933
BtsI GCAGTG 1 cut(s) 551
BtsIMutI CAGTG 3 cut(s) 122, 528, 551
Cac8I GCNNGC 6 cut(s) 191, 307, 558, 877, 951, 1110
CciI TCATGA 1 cut(s) 82
Cfr10I RCCGGY 1 cut(s) 1039
Cfr13I GGNCC 2 cut(s) 6, 127
CseI GACGC 2 cut(s) 190, 422
Csp6I GTAC 2 cut(s) 866, 908
CviQI GTAC 2 cut(s) 866, 908
DdeI CTNAG 3 cut(s) 989, 1113, 1195
DpnI GATC 1 cut(s) 963
DpnII GATC 1 cut(s) 961
Eam1104I CTCTTC 2 cut(s) 107, 1077
EarI CTCTTC 2 cut(s) 107, 1077
EciI GGCGGA 1 cut(s) 166
Eco130I CCWWGG 1 cut(s) 73
Eco147I AGGCCT 1 cut(s) 677
Eco32I GATATC 1 cut(s) 765
Eco47I GGWCC 1 cut(s) 6
Eco57I CTGAAG 2 cut(s) 890, 909
Eco91I GGTNACC 1 cut(s) 1048
EcoNI CCTNNNNNAGG 1 cut(s) 671
EcoO109I RGGNCCY 1 cut(s) 6
EcoO65I GGTNACC 1 cut(s) 1048
EcoRV GATATC 1 cut(s) 765
EcoT14I CCWWGG 1 cut(s) 73
ErhI CCWWGG 1 cut(s) 73
Esp3I CGTCTC 1 cut(s) 208
FauI CCCGC 1 cut(s) 198
FauNDI CATATG 1 cut(s) 1018
FbaI TGATCA 1 cut(s) 961
FblI GTMKAC 2 cut(s) 270, 299
Fnu4HI GCNGC 3 cut(s) 588, 798, 880
FokI GGATG 7 cut(s) 221, 434, 478, 491, 543, 752, 940
Fsp4HI GCNGC 3 cut(s) 588, 798, 880
FspBI CTAG 3 cut(s) 668, 1269, 1291
GluI GCNGC 3 cut(s) 588, 798, 880
HaeIII GGCC 4 cut(s) 78, 128, 666, 677
HapII CCGG 2 cut(s) 539, 1040
HgaI GACGC 2 cut(s) 190, 422
Hin1I GRCGYC 1 cut(s) 201
HincII GTYRAC 3 cut(s) 271, 300, 441
HindII GTYRAC 3 cut(s) 271, 300, 441
HindIII AAGCTT 1 cut(s) 1059
HinfI GANTC 1 cut(s) 641
HpaII CCGG 2 cut(s) 539, 1040
HphI GGTGA 3 cut(s) 37, 214, 1054
Hpy166II GTNNAC 4 cut(s) 184, 271, 300, 441
Hpy188I TCNGA 4 cut(s) 762, 927, 990, 1138
Hpy188III TCNNGA 5 cut(s) 83, 137, 471, 1263, 1286
Hpy8I GTNNAC 4 cut(s) 184, 271, 300, 441
Hpy99I CGWCG 1 cut(s) 272
HpyAV CCTTC 7 cut(s) 865, 884, 1039, 1194, 1221, 1237, 1246
HpyCH4III ACNGT 4 cut(s) 33, 383, 523, 1054
HpyCH4IV ACGT 3 cut(s) 66, 339, 568
HpyF10VI GCNNNNNNNGC 4 cut(s) 797, 1067, 1118, 1127
HpyF3I CTNAG 3 cut(s) 989, 1113, 1195
HpySE526I ACGT 3 cut(s) 66, 339, 568
Hsp92I GRCGYC 1 cut(s) 201
Ksp22I TGATCA 1 cut(s) 961
Kzo9I GATC 1 cut(s) 961
LguI GCTCTTC 2 cut(s) 107, 1077
LmnI GCTCC 2 cut(s) 179, 1105
Lsp1109I GCAGC 2 cut(s) 784, 891
LweI GCATC 2 cut(s) 918, 1265
MaeI CTAG 3 cut(s) 668, 1269, 1291
MaeII ACGT 3 cut(s) 66, 339, 568
MaeIII GTNAC 4 cut(s) 220, 377, 564, 1048
MalI GATC 1 cut(s) 963
MbiI CCGCTC 1 cut(s) 263
MboI GATC 1 cut(s) 961
MboII GAAGA 3 cut(s) 94, 222, 1064
MfeI CAATTG 1 cut(s) 653
MhlI GDGCHC 1 cut(s) 1072
MluCI AATT 7 cut(s) 324, 609, 653, 807, 824, 1140, 1162
MluI ACGCGT 1 cut(s) 374
MlyI GAGTC 1 cut(s) 635
MmeI TCCRAC 2 cut(s) 52, 905
MroXI GAANNNNTTC 1 cut(s) 1186
MseI TTAA 7 cut(s) 56, 447, 492, 545, 593, 603, 1056
MslI CAYNNNNRTG 2 cut(s) 216, 618
MspI CCGG 2 cut(s) 539, 1040
MunI CAATTG 1 cut(s) 653
Mva1269I GAATGC 2 cut(s) 358, 646
MvnI CGCG 1 cut(s) 376
MwoI GCNNNNNNNGC 4 cut(s) 797, 1067, 1118, 1127
NdeI CATATG 1 cut(s) 1018
NdeII GATC 1 cut(s) 961
NlaIV GGNNCC 1 cut(s) 7
NmeAIII GCCGAG 1 cut(s) 177
NmuCI GTSAC 1 cut(s) 220
NspI RCATGY 3 cut(s) 115, 277, 1086
PagI TCATGA 1 cut(s) 82
PceI AGGCCT 1 cut(s) 677
PciI ACATGT 1 cut(s) 273
PciSI GCTCTTC 2 cut(s) 107, 1077
PcsI WCGNNNNNNNCGW 1 cut(s) 204
PctI GAATGC 2 cut(s) 358, 646
PdmI GAANNNNTTC 1 cut(s) 1186
PkrI GCNGC 3 cut(s) 589, 799, 881
PleI GAGTC 1 cut(s) 635
PpsI GAGTC 1 cut(s) 635
Ppu21I YACGTR 1 cut(s) 569
PpuMI RGGWCCY 1 cut(s) 6
PscI ACATGT 1 cut(s) 273
Psp1406I AACGTT 1 cut(s) 339
Psp5II RGGWCCY 1 cut(s) 6
PspEI GGTNACC 1 cut(s) 1048
PspN4I GGNNCC 1 cut(s) 7
PspPI GGNCC 2 cut(s) 6, 127
PspPPI RGGWCCY 1 cut(s) 6
RsaI GTAC 2 cut(s) 867, 909
RsaNI GTAC 2 cut(s) 866, 908
RseI CAYNNNNRTG 2 cut(s) 216, 618
SalI GTCGAC 2 cut(s) 269, 298
SapI GCTCTTC 2 cut(s) 107, 1077
SaqAI TTAA 7 cut(s) 56, 447, 492, 545, 593, 603, 1056
SatI GCNGC 3 cut(s) 588, 798, 880
Sau3AI GATC 1 cut(s) 961
Sau96I GGNCC 2 cut(s) 6, 127
ScaI AGTACT 2 cut(s) 867, 909
SchI GAGTC 1 cut(s) 635
SduI GDGCHC 1 cut(s) 1072
SfaNI GCATC 2 cut(s) 918, 1265
SfcI CTRYAG 1 cut(s) 508
SinI GGWCC 1 cut(s) 6
SmiMI CAYNNNNRTG 2 cut(s) 216, 618
SmlI CTYRAG 1 cut(s) 164
SmoI CTYRAG 1 cut(s) 164
SpeI ACTAGT 1 cut(s) 1268
Sse9I AATT 7 cut(s) 324, 609, 653, 807, 824, 1140, 1162
SseBI AGGCCT 1 cut(s) 677
SsiI CCGC 8 cut(s) 177, 187, 191, 261, 303, 587, 721, 1214
SspMI CTAG 3 cut(s) 668, 1269, 1291
StuI AGGCCT 1 cut(s) 677
StyI CCWWGG 1 cut(s) 73
TaaI ACNGT 4 cut(s) 33, 383, 523, 1054
TaiI ACGT 3 cut(s) 69, 342, 571
TaqI TCGA 4 cut(s) 138, 270, 299, 501
TasI AATT 7 cut(s) 324, 609, 653, 807, 824, 1140, 1162
TatI WGTACW 2 cut(s) 865, 907
TauI GCSGC 1 cut(s) 590
Tru1I TTAA 7 cut(s) 56, 447, 492, 545, 593, 603, 1056
Tru9I TTAA 7 cut(s) 56, 447, 492, 545, 593, 603, 1056
TscAI CASTG 3 cut(s) 129, 528, 558
TseFI GTSAC 1 cut(s) 220
TseI GCWGC 2 cut(s) 797, 879
Tsp45I GTSAC 1 cut(s) 220
TspDTI ATGAA 6 cut(s) 336, 602, 743, 770, 918, 1250
TspGWI ACGGA 3 cut(s) 196, 803, 1110
TspRI CASTG 3 cut(s) 129, 528, 558
VpaK11BI GGWCC 1 cut(s) 6
XagI CCTNNNNNAGG 1 cut(s) 671
XapI RAATTY 3 cut(s) 324, 609, 807
XceI RCATGY 3 cut(s) 115, 277, 1086
XcmI CCANNNNNNNNNTGG 1 cut(s) 659
XmiI GTMKAC 2 cut(s) 270, 299
XmnI GAANNNNTTC 1 cut(s) 1186
XspI CTAG 3 cut(s) 668, 1269, 1291
ZrmI AGTACT 2 cut(s) 867, 909
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.