MD05G1013600.v1.1

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr05
OG0012639
Physical Location & Seq
Forward (+)
2594515 .. 2596308
1794 bp
Loading structure...
UTR
Exon/CDS
Intron
MD05G1013600.v1.1.491

Sequence Viewer

Length: 1407 bp
ATGTTGTGGAATTTAATGATGAAGTCCCATGTCGAATGTGGTCTTGTTGATTTGGCTCTGTTGCTGTACAAGAAGATGCGTGAGTTGGGTGTTTCGCATGATTGCTTTACTTTCCCGATTGTAAACAAGGTGGTTATGTTGCTCGGGGGTGAAGTTAGGTATGCGGGAATGGTTCATTGTGTGGCCATTCAAATGGGTTTTGGAATGGATGTGTATTTTGGTAATACAATGATTGATATGTATGTGAAATGCGGAGAAATTGATCGTGCTCGTAAGTTGTTTGATGAAATGTGTCAAAGAGATTTGGTTTCGCGGACATCGATGATTTCCGGCTATATGTTTCGGAAGGGAATGTTGCCTGGCAAAGTGGCGCCGGGCGTTGAGACATTAACTTTGGTTATATCAGCATTGACCAAACATGGGATTCTTTCCCAAGGTGAAAGCTTGCATTGTTTGGCGATAAAACGTGGGCTTTGTGATCACGTTTTGCAGACATCTTTGTTAGACCTCTATGCCAAGTGTGGAGAATTAGGAATCTCAGATAGGCTGTTCAGAGAAATCCCTCACAGGAACAGCATTACTTGGGGTGCTATGATGTTTGGCTTCATTCAAAATGGTTGGTTTAGTGAAGCTGTTGGACTCTTTCGCGAAATGCAAGCTTTGGGTCCGGAACCAACGGCTGAGATACTAAGAAGCCTCGTTGATGCATTTGCAAACCTAGGTGCTTTGAAGTTGGGAAAACAAATTCATGGCTACATCATAAGGAAATCATTGTATGAAGACGAGGAGAGCTATACTCATCTCGAAACCTCCATAATAAACATGTACATAAGAAGTGGTAGTCTATCTGCAGCTAGAGTGTGTTTTGATAGAATGTTGGTCAAAGATATAGTGACTTGGACATCAATGATCGAGGGCTATGGGAGCCACGGACTTGGTTTTGAAGCCTTGAAACTATTTGACCTGATGATTAGAGAAGGAATAAGACCAAATAGTGCCACCTTCATAAGCTTGTTATCTGCTTGTAGCCATTCCGGTCTTGCGACTGAAGGTTGTGATGCTTTTTGTTCCTTGAAATGGAAGTTTGGTATCGAACCTGATTTAGACCATTACACTAGCATTGTTGATCTCTTGGGTCGATTTGGGAAGCTTAAAGAGGCCTTAGCTGATGTAGAATTTACAGTCTCAGACAGAGATGTTGGGGAGCATGCTGCTCAGAGGCTCTTGGAACTAGAACCTGATAACGCTAGGTACCATACTCTGTTGAGTAACACACAAGCTAGTGTCGGACAGTGGGATGAAGTAGAAGTGACGAGGAGAGTTATGAGCGAGATGGATCTAAAGAAGATGCCAGGGTGGAGCTGCCAGGATGCAATAGGGATTGATTTGAATTTGCTGATCAGCTAA
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

Protein Analysis

469

Amino Acids

52.35

Weight (kDa)

5.81

Isoelectric Point (pI)

27.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 70 - 102 4e-06 PPR repeat family
PPR PF01535 75 - 101 2.8e-06 PPR repeat
PPR PF01535 193 - 222 3.7e-06 PPR repeat
PPR_2 PF13041 295 - 343 4e-12 PPR repeat family
PPR PF01535 298 - 328 3.2e-09 PPR repeat
E_motif PF20431 396 - 454 3e-13 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: OG0012639)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g24950
malus_domestica MD05G1013600.v1.1 MD14G1083400.v1.1
prunus_persica Prupe.7G047100_v2.0.a1
pyrus_communis pycom14g07240
rosa_chinensis RchiOBHm_Chr2g0124611
rosa_laevigata RLG00000018808
rosa_multiflora Rmu_sc0005597.1_g000009
rosa_roxburghii Rroxscaffold_2G00119840
rosa_rugosa Rorug02G0251600 Rorug02G0251700
rosa_samantha Rh2AG310300 Rh2AG310400 Rh2BG318800 Rh2CG297200 Rh2CG302100 Rh2DG334000
rosa_wichuraiana Rw0G009400 Rw2G025100

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 1251
AccB1I GGYRCC 2 cut(s) 370, 1251
AccII CGCG 2 cut(s) 313, 648
AccIII TCCGGA 1 cut(s) 667
AciI CCGC 3 cut(s) 164, 252, 313
AclWI GGATC 1 cut(s) 1344
AcoI YGGCCR 1 cut(s) 183
AcsI RAATTY 4 cut(s) 10, 744, 1175, 1390
AcuI CTGAAG 1 cut(s) 1068
AcyI GRCGYC 1 cut(s) 371
AfaI GTAC 3 cut(s) 68, 827, 1253
AfiI CCNNNNNNNGG 2 cut(s) 420, 1077
AflIII ACRYGT 1 cut(s) 822
AgsI TTSAA 7 cut(s) 191, 611, 730, 944, 952, 1075, 1390
AjnI CCWGG 3 cut(s) 358, 1351, 1365
Alw21I GWGCWC 1 cut(s) 271
Alw26I GTCTC 2 cut(s) 377, 1189
AlwI GGATC 1 cut(s) 1344
Ama87I CYCGRG 1 cut(s) 143
Aor13HI TCCGGA 1 cut(s) 667
AoxI GGCC 2 cut(s) 183, 1158
ApeKI GCWGC 3 cut(s) 851, 1211, 1362
ApoI RAATTY 4 cut(s) 10, 744, 1175, 1390
ArsI GACNNNNNNTTYG 2 cut(s) 376, 408
Asp718I GGTACC 1 cut(s) 1251
AspA2I CCTAGG 1 cut(s) 718
AspLEI GCGC 1 cut(s) 373
AspS9I GGNCC 1 cut(s) 665
AsuC2I CCSGG 1 cut(s) 375
AsuHPI GGTGA 2 cut(s) 161, 449
AvaI CYCGRG 1 cut(s) 143
AvaII GGWCC 1 cut(s) 665
AvrII CCTAGG 1 cut(s) 718
BalI TGGCCA 1 cut(s) 185
BanI GGYRCC 2 cut(s) 370, 1251
BbsI GAAGAC 1 cut(s) 786
Bbv12I GWGCWC 1 cut(s) 271
BbvI GCAGC 3 cut(s) 863, 1198, 1349
BccI CCATC 1 cut(s) 1327
BceAI ACGGC 1 cut(s) 693
BciT130I CCWGG 3 cut(s) 360, 1353, 1367
BclI TGATCA 2 cut(s) 478, 1398
BcnI CCSGG 1 cut(s) 375
BcoDI GTCTC 2 cut(s) 377, 1189
BfaI CTAG 6 cut(s) 719, 855, 1116, 1232, 1248, 1281
BfmI CTRYAG 1 cut(s) 849
BfoI RGCGCY 1 cut(s) 374
BisI GCNGC 3 cut(s) 852, 1212, 1363
BlnI CCTAGG 1 cut(s) 718
BlsI GCNGC 3 cut(s) 853, 1213, 1364
Bme1390I CCNGG 4 cut(s) 360, 375, 1353, 1367
Bme18I GGWCC 1 cut(s) 665
BmeT110I CYCGRG 1 cut(s) 143
BmgT120I GGNCC 1 cut(s) 665
BmiI GGNNCC 5 cut(s) 372, 666, 672, 926, 1253
BmrFI CCNGG 4 cut(s) 360, 375, 1353, 1367
BmsI GCATC 5 cut(s) 66, 694, 1048, 1338, 1360
BpiI GAAGAC 1 cut(s) 786
BplI GAGNNNNNCTC 2 cut(s) 781, 813
Bpu10I CCTNAGC 1 cut(s) 1162
BpuMI CCSGG 1 cut(s) 375
Bsa29I ATCGAT 1 cut(s) 320
BsaHI GRCGYC 1 cut(s) 371
BsaJI CCNNGG 4 cut(s) 433, 718, 928, 1352
BsaWI WCCGGW 2 cut(s) 667, 1034
Bsc4I CCNNNNNNNGG 2 cut(s) 420, 1077
BseAI TCCGGA 1 cut(s) 667
BseBI CCWGG 3 cut(s) 360, 1353, 1367
BseCI ATCGAT 1 cut(s) 320
BseDI CCNNGG 4 cut(s) 433, 718, 928, 1352
BseGI GGATG 3 cut(s) 214, 1303, 1375
BseLI CCNNNNNNNGG 2 cut(s) 420, 1077
BseMII CTCAG 4 cut(s) 552, 672, 1200, 1229
BseRI GAGGAG 2 cut(s) 800, 1330
BseXI GCAGC 3 cut(s) 863, 1198, 1349
Bsh1236I CGCG 2 cut(s) 313, 648
BshFI GGCC 2 cut(s) 185, 1160
BshNI GGYRCC 2 cut(s) 370, 1251
BshVI ATCGAT 1 cut(s) 320
BsiHKAI GWGCWC 1 cut(s) 271
BsiHKCI CYCGRG 1 cut(s) 143
BsiSI CCGG 4 cut(s) 330, 374, 668, 1035
BslFI GGGAC 1 cut(s) 10
BslI CCNNNNNNNGG 2 cut(s) 420, 1077
BsmAI GTCTC 2 cut(s) 377, 1189
BsmFI GGGAC 1 cut(s) 10
BsnI GGCC 2 cut(s) 185, 1160
BsoBI CYCGRG 1 cut(s) 143
Bsp1286I GDGCHC 1 cut(s) 271
Bsp13I TCCGGA 1 cut(s) 667
Bsp1407I TGTACA 2 cut(s) 66, 825
Bsp143I GATC 6 cut(s) 262, 478, 909, 1126, 1336, 1398
Bsp68I TCGCGA 1 cut(s) 648
BspACI CCGC 3 cut(s) 164, 252, 313
BspANI GGCC 2 cut(s) 185, 1160
BspCNI CTCAG 4 cut(s) 551, 673, 1199, 1228
BspDI ATCGAT 1 cut(s) 320
BspEI TCCGGA 1 cut(s) 667
BspFNI CGCG 2 cut(s) 313, 648
BspLI GGNNCC 5 cut(s) 372, 666, 672, 926, 1253
BspMAI CTGCAG 1 cut(s) 853
BspPI GGATC 1 cut(s) 1344
BspT107I GGYRCC 2 cut(s) 370, 1251
BsrGI TGTACA 2 cut(s) 66, 825
BssECI CCNNGG 4 cut(s) 433, 718, 928, 1352
BssMI GATC 6 cut(s) 262, 478, 909, 1126, 1336, 1398
BssNI GRCGYC 1 cut(s) 371
BssT1I CCWWGG 2 cut(s) 433, 718
Bst2UI CCWGG 3 cut(s) 360, 1353, 1367
Bst4CI ACNGT 2 cut(s) 1183, 1293
BstACI GRCGYC 1 cut(s) 371
BstAUI TGTACA 2 cut(s) 66, 825
BstC8I GCNNGC 3 cut(s) 446, 657, 1209
BstDEI CTNAG 6 cut(s) 538, 681, 689, 1162, 1186, 1215
BstDSI CCRYGG 1 cut(s) 928
BstF5I GGATG 3 cut(s) 214, 1303, 1375
BstFNI CGCG 2 cut(s) 313, 648
BstH2I RGCGCY 1 cut(s) 374
BstHHI GCGC 1 cut(s) 373
BstKTI GATC 6 cut(s) 265, 481, 912, 1129, 1339, 1401
BstMAI GTCTC 2 cut(s) 377, 1189
BstMBI GATC 6 cut(s) 262, 478, 909, 1126, 1336, 1398
BstMWI GCNNNNNNNGC 1 cut(s) 924
BstNI CCWGG 3 cut(s) 360, 1353, 1367
BstNSI RCATGY 2 cut(s) 826, 1211
BstSCI CCNGG 4 cut(s) 358, 373, 1351, 1365
BstSFI CTRYAG 1 cut(s) 849
BstUI CGCG 2 cut(s) 313, 648
BstV1I GCAGC 3 cut(s) 863, 1198, 1349
BstV2I GAAGAC 1 cut(s) 786
BstX2I RGATCY 1 cut(s) 1336
BstXI CCANNNNNNTGG 2 cut(s) 193, 935
BstYI RGATCY 1 cut(s) 1336
Bsu15I ATCGAT 1 cut(s) 320
BsuRI GGCC 2 cut(s) 185, 1160
BsuTUI ATCGAT 1 cut(s) 320
BtgI CCRYGG 1 cut(s) 928
BtsCI GGATG 3 cut(s) 214, 1303, 1375
BtsIMutI CAGTG 1 cut(s) 1298
BtuMI TCGCGA 1 cut(s) 648
Cac8I GCNNGC 3 cut(s) 446, 657, 1209
CfoI GCGC 1 cut(s) 373
Cfr13I GGNCC 1 cut(s) 665
ClaI ATCGAT 1 cut(s) 320
Csp6I GTAC 3 cut(s) 67, 826, 1252
CviAII CATG 6 cut(s) 29, 98, 419, 749, 823, 1208
CviQI GTAC 3 cut(s) 67, 826, 1252
DdeI CTNAG 6 cut(s) 538, 681, 689, 1162, 1186, 1215
DinI GGCGCC 1 cut(s) 372
DpnI GATC 6 cut(s) 264, 480, 911, 1128, 1338, 1400
DpnII GATC 6 cut(s) 262, 478, 909, 1126, 1336, 1398
EaeI YGGCCR 1 cut(s) 183
Eco130I CCWWGG 2 cut(s) 433, 718
Eco147I AGGCCT 1 cut(s) 1160
Eco47I GGWCC 1 cut(s) 665
Eco57I CTGAAG 1 cut(s) 1068
Eco88I CYCGRG 1 cut(s) 143
EcoRII CCWGG 3 cut(s) 358, 1351, 1365
EcoT14I CCWWGG 2 cut(s) 433, 718
EcoT22I ATGCAT 1 cut(s) 709
EgeI GGCGCC 1 cut(s) 372
EheI GGCGCC 1 cut(s) 372
ErhI CCWWGG 2 cut(s) 433, 718
FaeI CATG 6 cut(s) 32, 101, 422, 752, 826, 1211
FaqI GGGAC 1 cut(s) 10
FatI CATG 6 cut(s) 28, 97, 418, 748, 822, 1207
FauI CCCGC 1 cut(s) 157
FbaI TGATCA 2 cut(s) 478, 1398
Fnu4HI GCNGC 3 cut(s) 852, 1212, 1363
FokI GGATG 3 cut(s) 221, 1310, 1382
Fsp4HI GCNGC 3 cut(s) 852, 1212, 1363
FspBI CTAG 6 cut(s) 719, 855, 1116, 1232, 1248, 1281
GlaI GCGC 1 cut(s) 372
GluI GCNGC 3 cut(s) 852, 1212, 1363
HaeII RGCGCY 1 cut(s) 374
HaeIII GGCC 2 cut(s) 185, 1160
HapII CCGG 4 cut(s) 330, 374, 668, 1035
HhaI GCGC 1 cut(s) 373
Hin1I GRCGYC 1 cut(s) 371
Hin1II CATG 6 cut(s) 32, 101, 422, 752, 826, 1211
Hin6I GCGC 1 cut(s) 371
HinP1I GCGC 1 cut(s) 371
HindIII AAGCTT 4 cut(s) 442, 657, 1009, 1148
HinfI GANTC 3 cut(s) 424, 534, 639
HpaII CCGG 4 cut(s) 330, 374, 668, 1035
HphI GGTGA 2 cut(s) 161, 449
Hpy166II GTNNAC 1 cut(s) 124
Hpy188I TCNGA 6 cut(s) 345, 541, 554, 1189, 1218, 1289
Hpy188III TCNNGA 4 cut(s) 115, 647, 668, 803
Hpy8I GTNNAC 1 cut(s) 124
HpyAV CCTTC 4 cut(s) 340, 971, 1012, 1043
HpyCH4III ACNGT 2 cut(s) 1183, 1293
HpyCH4IV ACGT 2 cut(s) 466, 483
HpyCH4V TGCA 7 cut(s) 448, 490, 655, 707, 713, 851, 1373
HpyF10VI GCNNNNNNNGC 1 cut(s) 924
HpyF3I CTNAG 6 cut(s) 538, 681, 689, 1162, 1186, 1215
HpySE526I ACGT 2 cut(s) 466, 483
Hsp92I GRCGYC 1 cut(s) 371
Hsp92II CATG 6 cut(s) 32, 101, 422, 752, 826, 1211
HspAI GCGC 1 cut(s) 371
KasI GGCGCC 1 cut(s) 370
Kpn2I TCCGGA 1 cut(s) 667
KpnI GGTACC 1 cut(s) 1255
Ksp22I TGATCA 2 cut(s) 478, 1398
Kzo9I GATC 6 cut(s) 262, 478, 909, 1126, 1336, 1398
LmnI GCTCC 3 cut(s) 924, 1204, 1359
Lsp1109I GCAGC 3 cut(s) 863, 1198, 1349
LweI GCATC 5 cut(s) 66, 694, 1048, 1338, 1360
MaeI CTAG 6 cut(s) 719, 855, 1116, 1232, 1248, 1281
MaeII ACGT 2 cut(s) 466, 483
MaeIII GTNAC 3 cut(s) 892, 1268, 1309
MalI GATC 6 cut(s) 264, 480, 911, 1128, 1338, 1400
MboI GATC 6 cut(s) 262, 478, 909, 1126, 1336, 1398
MboII GAAGA 3 cut(s) 85, 791, 1357
MflI RGATCY 1 cut(s) 1336
MhlI GDGCHC 1 cut(s) 271
MlsI TGGCCA 1 cut(s) 185
MluCI AATT 6 cut(s) 10, 258, 527, 744, 1175, 1390
MluNI TGGCCA 1 cut(s) 185
Mly113I GGCGCC 1 cut(s) 371
MlyI GAGTC 1 cut(s) 633
MmeI TCCRAC 2 cut(s) 616, 1267
MnlI CCTC 9 cut(s) 518, 573, 707, 778, 820, 907, 1150, 1212, 1308
Mox20I TGGCCA 1 cut(s) 185
Mph1103I ATGCAT 1 cut(s) 709
MroI TCCGGA 1 cut(s) 667
MscI TGGCCA 1 cut(s) 185
MseI TTAA 3 cut(s) 14, 389, 1152
MslI CAYNNNNRTG 1 cut(s) 191
Msp20I TGGCCA 1 cut(s) 185
MspI CCGG 4 cut(s) 330, 374, 668, 1035
MspR9I CCNGG 4 cut(s) 360, 375, 1353, 1367
MvaI CCWGG 3 cut(s) 360, 1353, 1367
MvnI CGCG 2 cut(s) 313, 648
MwoI GCNNNNNNNGC 1 cut(s) 924
NarI GGCGCC 1 cut(s) 371
NciI CCSGG 1 cut(s) 375
NdeII GATC 6 cut(s) 262, 478, 909, 1126, 1336, 1398
NlaIII CATG 6 cut(s) 32, 101, 422, 752, 826, 1211
NlaIV GGNNCC 5 cut(s) 372, 666, 672, 926, 1253
NmuCI GTSAC 2 cut(s) 892, 1309
NruI TCGCGA 1 cut(s) 648
NsiI ATGCAT 1 cut(s) 709
NspI RCATGY 2 cut(s) 826, 1211
PaeI GCATGC 1 cut(s) 1211
PceI AGGCCT 1 cut(s) 1160
PciI ACATGT 1 cut(s) 822
PcsI WCGNNNNNNNCGW 1 cut(s) 317
PfeI GAWTC 2 cut(s) 424, 534
PkrI GCNGC 3 cut(s) 853, 1213, 1364
PleI GAGTC 1 cut(s) 633
PluTI GGCGCC 1 cut(s) 374
PpsI GAGTC 1 cut(s) 633
PscI ACATGT 1 cut(s) 822
Psp6I CCWGG 3 cut(s) 358, 1351, 1365
PspGI CCWGG 3 cut(s) 358, 1351, 1365
PspN4I GGNNCC 5 cut(s) 372, 666, 672, 926, 1253
PspPI GGNCC 1 cut(s) 665
PstI CTGCAG 1 cut(s) 853
PsuI RGATCY 1 cut(s) 1336
RruI TCGCGA 1 cut(s) 648
RsaI GTAC 3 cut(s) 68, 827, 1253
RsaNI GTAC 3 cut(s) 67, 826, 1252
RseI CAYNNNNRTG 1 cut(s) 191
SaqAI TTAA 3 cut(s) 14, 389, 1152
SatI GCNGC 3 cut(s) 852, 1212, 1363
Sau3AI GATC 6 cut(s) 262, 478, 909, 1126, 1336, 1398
Sau96I GGNCC 1 cut(s) 665
SchI GAGTC 1 cut(s) 633
ScrFI CCNGG 4 cut(s) 360, 375, 1353, 1367
SduI GDGCHC 1 cut(s) 271
SfaNI GCATC 5 cut(s) 66, 694, 1048, 1338, 1360
SfcI CTRYAG 1 cut(s) 849
SfoI GGCGCC 1 cut(s) 372
SinI GGWCC 1 cut(s) 665
SmiMI CAYNNNNRTG 1 cut(s) 191
SphI GCATGC 1 cut(s) 1211
Sse9I AATT 6 cut(s) 10, 258, 527, 744, 1175, 1390
SseBI AGGCCT 1 cut(s) 1160
SsiI CCGC 3 cut(s) 164, 252, 313
SspDI GGCGCC 1 cut(s) 370
SspMI CTAG 6 cut(s) 719, 855, 1116, 1232, 1248, 1281
StuI AGGCCT 1 cut(s) 1160
StyD4I CCNGG 4 cut(s) 358, 373, 1351, 1365
StyI CCWWGG 2 cut(s) 433, 718
TaaI ACNGT 2 cut(s) 1183, 1293
TaiI ACGT 2 cut(s) 469, 486
TaqI TCGA 6 cut(s) 33, 320, 804, 912, 1092, 1138
TasI AATT 6 cut(s) 10, 258, 527, 744, 1175, 1390
TatI WGTACW 2 cut(s) 66, 825
TfiI GAWTC 2 cut(s) 424, 534
Tru1I TTAA 3 cut(s) 14, 389, 1152
Tru9I TTAA 3 cut(s) 14, 389, 1152
TscAI CASTG 1 cut(s) 1298
TseFI GTSAC 2 cut(s) 892, 1309
TseI GCWGC 3 cut(s) 851, 1211, 1362
Tsp45I GTSAC 2 cut(s) 892, 1309
TspDTI ATGAA 8 cut(s) 35, 164, 300, 595, 737, 792, 994, 1314
TspGWI ACGGA 1 cut(s) 945
TspRI CASTG 1 cut(s) 1298
VpaK11BI GGWCC 1 cut(s) 665
XapI RAATTY 4 cut(s) 10, 744, 1175, 1390
XceI RCATGY 2 cut(s) 826, 1211
XcmI CCANNNNNNNNNTGG 1 cut(s) 35
XmaJI CCTAGG 1 cut(s) 718
XspI CTAG 6 cut(s) 719, 855, 1116, 1232, 1248, 1281
Zsp2I ATGCAT 1 cut(s) 709
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.