MD15G1110300.v1.1

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr15
OG0009978
Physical Location & Seq
Forward (+)
7706746 .. 7709865
3120 bp
Loading structure...
UTR
Exon/CDS
Intron
MD15G1110300.v1.1.491

Sequence Viewer

Length: 1350 bp
ATGGCAGAGATAGGCTTTATAAGTTGCGCTTCTAAAGTTAACTACATGGATCACATGGGCATCATAAGGGTTTTATGCATGGATGGTAAGTTGGGAACAGCTTTTTGGCTTCGGAGAAAAATCACTAGGAAAGGCTTTGTTCCTGATGTTTTGACGCACAATTATCTTTTAAATGGACTGTGTAAAACTGGTCACTTGGAGAAGGCAGATTGGCTAATTAGAGAGATGTTAGAAATGGGCCCTCCTCCCAATTGCGCCACGTACAACACATTTATTAAGGGTTATTGCCTTCTTGATGATGTGGATAAAGCTCTTTATCTTTTCTCTACAATGAGTAACATTGGTATTAGTCCGAATAGGGTCACTTGCAACATACTTGTACATGCATTGTGCAAGAGAGGTCTTATGGAGAGTGTGAAGAAGCTTCTTAACAAGATATTAGATGATGATTATGACAAGACACCATCAGATTTAATTACCTCAACTACACTTATGGATGGTTATCTTAAAAACGGAAATATGGCTCAGGCACTTCATATTTGGGATGACATGGTCCAAATGAATACCCAAGTAGATGTCGTTGCATATAATGTTCTCATCAATGGATTTTGTTTGAGTCGAGACATGAACCTTGCTTATGGTTCCCTTTGTGAAATGATCAAAAGAGGATTGCTTCCTAATGTTATTACTTTTAATACACTTATAAGTGGTCTTTGCAAAGAAGGAAAATTAGAGGAGGCTTGCTACGTCCATGAAAGTATGTCAAAAATGGGAGTTACTCCAAATGATGTTTCATACAAAATAATTGTTCAGGGCCTGTGTATTAAAGGAGAAGTTTTCAGAGCTAACAAGTTTCTTCTTCGTATGCTAGAAAAGTCAATGGCGCCTGAGCCTCTACTATGGAATTGTATTATTGATTGTTATGGAAGATATGGGGATCTTAGTGCTGCACTCTCTGTCAAGGATCATATGTTCGCTTCTGGTGTTCAACCAAATGTGTATACTTACAATGCGTTGATCCATGCACAAGTAAAGGGAGGAAACATTGATCGTGCTCTTGCTTTCAAAAAGGAAATGCTTATGTCTGGTCTTTGTCCTGATGTGGTCACTTATAATTTGTTGATAGGTGCTGCTTGTAAGTTAGGGCACATTCTTTTTGCATTCCGGTTATATGATGAAATGCTGACAATAGGATTTTATCCAGATATATTTACTTACACTGCACTAATCAGAGAGCACTGCTTGAGAGGTAACATGAAGGAGGCAGAAGAGCTTTTTATGAAGATACAGGAATCTGGTTTAACTATCGATTATGTTCCATATTGTATACTTTTCAAGGAGTACTGCTAA

Protein Analysis

450

Amino Acids

50.67

Weight (kDa)

6.78

Isoelectric Point (pI)

33.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 21 - 62 8.9e-07 PPR repeat family
PPR_1 PF12854 44 - 76 1.3e-06 PPR repeat
PPR_2 PF13041 49 - 96 2e-12 PPR repeat family
PPR_3 PF13812 72 - 131 7.1e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 80 - 111 7.4e-09 PPR repeat
PPR_2 PF13041 86 - 132 4.4e-13 PPR repeat family
PPR_2 PF13041 157 - 204 4.2e-13 PPR repeat family
PPR_3 PF13812 180 - 236 7.5e-10 Pentatricopeptide repeat domain
PPR_2 PF13041 192 - 240 3.5e-16 PPR repeat family
PPR_3 PF13812 218 - 270 9.7e-09 Pentatricopeptide repeat domain
PPR_1 PF12854 222 - 254 1.2e-13 PPR repeat
PPR_2 PF13041 226 - 274 2.9e-17 PPR repeat family
PPR PF01535 229 - 259 6.5e-08 PPR repeat
TPR_24 PF23276 288 - 393 8.9e-07 Fungal tetratrico peptide repeats
PPR_2 PF13041 300 - 342 2.8e-11 PPR repeat family
PPR_3 PF13812 319 - 377 1.4e-12 Pentatricopeptide repeat domain
PPR_1 PF12854 328 - 359 1.6e-06 PPR repeat
PPR_2 PF13041 333 - 380 1.4e-11 PPR repeat family
PPR_1 PF12854 363 - 394 8.7e-09 PPR repeat
PPR_2 PF13041 366 - 414 2.7e-14 PPR repeat family
PPR_3 PF13812 389 - 435 1e-05 Pentatricopeptide repeat domain
PPR_1 PF12854 398 - 426 2.1e-07 PPR repeat
PPR_2 PF13041 401 - 449 3.2e-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 3 cut(s) 20, 704, 1113
AccB1I GGYRCC 1 cut(s) 883
AccI GTMKAC 2 cut(s) 1001, 1327
AclWI GGATC 4 cut(s) 57, 945, 972, 1012
AcyI GRCGYC 1 cut(s) 884
AfaI GTAC 3 cut(s) 263, 381, 1343
AgsI TTSAA 3 cut(s) 989, 1066, 1336
AjuI GAANNNNNNNTTGG 4 cut(s) 88, 120, 775, 807
AloI GAACNNNNNNTCC 2 cut(s) 956, 988
AluBI AGCT 5 cut(s) 101, 311, 424, 845, 1273
AluI AGCT 5 cut(s) 101, 311, 424, 845, 1273
Alw21I GWGCWC 2 cut(s) 1057, 1239
Alw26I GTCTC 1 cut(s) 615
AlwI GGATC 4 cut(s) 57, 945, 972, 1012
AlwNI CAGNNNCTG 1 cut(s) 817
AoxI GGCC 2 cut(s) 238, 814
ApaI GGGCCC 1 cut(s) 242
ApeKI GCWGC 2 cut(s) 947, 1130
AspLEI GCGC 3 cut(s) 29, 257, 886
AspS9I GGNCC 4 cut(s) 238, 239, 553, 814
AvaII GGWCC 1 cut(s) 553
BaeGI GKGCMC 2 cut(s) 242, 1149
BanI GGYRCC 1 cut(s) 883
BanII GRGCYC 1 cut(s) 242
Bbv12I GWGCWC 2 cut(s) 1057, 1239
BbvI GCAGC 2 cut(s) 934, 1117
BccI CCATC 3 cut(s) 77, 472, 491
BclI TGATCA 1 cut(s) 657
BcoDI GTCTC 1 cut(s) 615
BfaI CTAG 2 cut(s) 126, 869
BfoI RGCGCY 1 cut(s) 887
BisI GCNGC 2 cut(s) 948, 1131
BlsI GCNGC 2 cut(s) 949, 1132
BmcAI AGTACT 1 cut(s) 1343
Bme18I GGWCC 1 cut(s) 553
BmgT120I GGNCC 4 cut(s) 238, 239, 553, 814
BmiI GGNNCC 3 cut(s) 240, 643, 885
BmsI GCATC 1 cut(s) 69
Bpu10I CCTNAGC 2 cut(s) 525, 888
BpuEI CTTGAG 1 cut(s) 1264
Bsa29I ATCGAT 1 cut(s) 1308
BsaAI YACGTR 1 cut(s) 261
BsaBI GATNNNNATC 1 cut(s) 501
BsaHI GRCGYC 1 cut(s) 884
BsaWI WCCGGW 1 cut(s) 1164
Bse1I ACTGG 1 cut(s) 193
Bse8I GATNNNNATC 1 cut(s) 501
BseCI ATCGAT 1 cut(s) 1308
BseGI GGATG 3 cut(s) 88, 502, 550
BseJI GATNNNNATC 1 cut(s) 501
BseMII CTCAG 2 cut(s) 539, 879
BseNI ACTGG 1 cut(s) 193
BseRI GAGGAG 2 cut(s) 234, 749
BseSI GKGCMC 2 cut(s) 242, 1149
BseXI GCAGC 2 cut(s) 934, 1117
BsgI GTGCAG 2 cut(s) 933, 1206
BshFI GGCC 2 cut(s) 240, 816
BshNI GGYRCC 1 cut(s) 883
BshVI ATCGAT 1 cut(s) 1308
BsiHKAI GWGCWC 2 cut(s) 1057, 1239
BsiSI CCGG 1 cut(s) 1165
BsmAI GTCTC 1 cut(s) 615
BsmI GAATGC 1 cut(s) 1160
BsnI GGCC 2 cut(s) 240, 816
Bsp120I GGGCCC 1 cut(s) 238
Bsp1286I GDGCHC 4 cut(s) 242, 1057, 1149, 1239
Bsp1407I TGTACA 1 cut(s) 379
Bsp143I GATC 6 cut(s) 49, 657, 937, 964, 1017, 1048
BspANI GGCC 2 cut(s) 240, 816
BspCNI CTCAG 2 cut(s) 538, 880
BspDI ATCGAT 1 cut(s) 1308
BspLI GGNNCC 3 cut(s) 240, 643, 885
BspPI GGATC 4 cut(s) 57, 945, 972, 1012
BspQI GCTCTTC 1 cut(s) 1263
BspT107I GGYRCC 1 cut(s) 883
BsrGI TGTACA 1 cut(s) 379
BsrI ACTGG 1 cut(s) 193
BssMI GATC 6 cut(s) 49, 657, 937, 964, 1017, 1048
BssNAI GTATAC 2 cut(s) 1002, 1328
BssNI GRCGYC 1 cut(s) 884
Bst1107I GTATAC 2 cut(s) 1002, 1328
Bst4CI ACNGT 1 cut(s) 180
Bst6I CTCTTC 1 cut(s) 1263
BstACI GRCGYC 1 cut(s) 884
BstAUI TGTACA 1 cut(s) 379
BstBAI YACGTR 1 cut(s) 261
BstC8I GCNNGC 1 cut(s) 742
BstDEI CTNAG 3 cut(s) 525, 888, 941
BstF5I GGATG 3 cut(s) 88, 502, 550
BstH2I RGCGCY 1 cut(s) 887
BstHHI GCGC 3 cut(s) 29, 257, 886
BstKTI GATC 6 cut(s) 52, 660, 940, 967, 1020, 1051
BstMAI GTCTC 1 cut(s) 615
BstMBI GATC 6 cut(s) 49, 657, 937, 964, 1017, 1048
BstNSI RCATGY 1 cut(s) 386
BstSLI GKGCMC 2 cut(s) 242, 1149
BstV1I GCAGC 2 cut(s) 934, 1117
BstX2I RGATCY 1 cut(s) 937
BstYI RGATCY 1 cut(s) 937
BstZ17I GTATAC 2 cut(s) 1002, 1328
Bsu15I ATCGAT 1 cut(s) 1308
BsuRI GGCC 2 cut(s) 240, 816
BsuTUI ATCGAT 1 cut(s) 1308
BtsCI GGATG 3 cut(s) 88, 502, 550
BtsI GCAGTG 2 cut(s) 1218, 1237
BtsIMutI CAGTG 2 cut(s) 1218, 1237
Cac8I GCNNGC 1 cut(s) 742
CaiI CAGNNNCTG 1 cut(s) 817
CfoI GCGC 3 cut(s) 29, 257, 886
Cfr13I GGNCC 4 cut(s) 238, 239, 553, 814
ClaI ATCGAT 1 cut(s) 1308
CseI GACGC 1 cut(s) 163
Csp6I GTAC 3 cut(s) 262, 380, 1342
CviAII CATG 9 cut(s) 46, 55, 79, 383, 550, 625, 752, 1022, 1255
CviQI GTAC 3 cut(s) 262, 380, 1342
DdeI CTNAG 3 cut(s) 525, 888, 941
DinI GGCGCC 1 cut(s) 885
DpnI GATC 6 cut(s) 51, 659, 939, 966, 1019, 1050
DpnII GATC 6 cut(s) 49, 657, 937, 964, 1017, 1048
DraI TTTAAA 1 cut(s) 171
Eam1104I CTCTTC 1 cut(s) 1263
EarI CTCTTC 1 cut(s) 1263
Eco24I GRGCYC 1 cut(s) 242
Eco47I GGWCC 1 cut(s) 553
EcoO109I RGGNCCY 2 cut(s) 239, 814
EcoT22I ATGCAT 2 cut(s) 80, 388
EcoT38I GRGCYC 1 cut(s) 242
EgeI GGCGCC 1 cut(s) 885
EheI GGCGCC 1 cut(s) 885
FaeI CATG 9 cut(s) 49, 58, 82, 386, 553, 628, 755, 1025, 1258
FalI AAGNNNNNCTT 2 cut(s) 13, 45
FatI CATG 9 cut(s) 45, 54, 78, 382, 549, 624, 751, 1021, 1254
FauNDI CATATG 1 cut(s) 969
FbaI TGATCA 1 cut(s) 657
FblI GTMKAC 2 cut(s) 1001, 1327
Fnu4HI GCNGC 2 cut(s) 948, 1131
FokI GGATG 3 cut(s) 95, 509, 557
FriOI GRGCYC 1 cut(s) 242
Fsp4HI GCNGC 2 cut(s) 948, 1131
FspBI CTAG 2 cut(s) 126, 869
GlaI GCGC 3 cut(s) 28, 256, 885
GluI GCNGC 2 cut(s) 948, 1131
HaeII RGCGCY 1 cut(s) 887
HaeIII GGCC 2 cut(s) 240, 816
HapII CCGG 1 cut(s) 1165
HgaI GACGC 1 cut(s) 163
HhaI GCGC 3 cut(s) 29, 257, 886
Hin1I GRCGYC 1 cut(s) 884
Hin1II CATG 9 cut(s) 49, 58, 82, 386, 553, 628, 755, 1025, 1258
Hin6I GCGC 3 cut(s) 27, 255, 884
HinP1I GCGC 3 cut(s) 27, 255, 884
HincII GTYRAC 1 cut(s) 40
HindII GTYRAC 1 cut(s) 40
HindIII AAGCTT 1 cut(s) 422
HinfI GANTC 2 cut(s) 616, 1292
HpaI GTTAAC 1 cut(s) 40
HpaII CCGG 1 cut(s) 1165
Hpy166II GTNNAC 3 cut(s) 40, 1002, 1328
Hpy188I TCNGA 5 cut(s) 114, 354, 469, 842, 1232
Hpy188III TCNNGA 5 cut(s) 143, 293, 620, 1097, 1202
Hpy8I GTNNAC 3 cut(s) 40, 1002, 1328
HpyAV CCTTC 4 cut(s) 196, 299, 716, 1252
HpyCH4III ACNGT 1 cut(s) 180
HpyCH4IV ACGT 2 cut(s) 260, 747
HpyF3I CTNAG 3 cut(s) 525, 888, 941
HpySE526I ACGT 2 cut(s) 260, 747
Hsp92I GRCGYC 1 cut(s) 884
Hsp92II CATG 9 cut(s) 49, 58, 82, 386, 553, 628, 755, 1025, 1258
HspAI GCGC 3 cut(s) 27, 255, 884
KasI GGCGCC 1 cut(s) 883
Ksp22I TGATCA 1 cut(s) 657
KspAI GTTAAC 1 cut(s) 40
Kzo9I GATC 6 cut(s) 49, 657, 937, 964, 1017, 1048
LguI GCTCTTC 1 cut(s) 1263
Lsp1109I GCAGC 2 cut(s) 934, 1117
LweI GCATC 1 cut(s) 69
MaeI CTAG 2 cut(s) 126, 869
MaeII ACGT 2 cut(s) 260, 747
MaeIII GTNAC 6 cut(s) 191, 335, 361, 775, 1105, 1250
MalI GATC 6 cut(s) 51, 659, 939, 966, 1019, 1050
MboI GATC 6 cut(s) 49, 657, 937, 964, 1017, 1048
MboII GAAGA 6 cut(s) 430, 848, 851, 939, 1280, 1294
MfeI CAATTG 1 cut(s) 250
MflI RGATCY 1 cut(s) 937
MhlI GDGCHC 4 cut(s) 242, 1057, 1149, 1239
MluCI AATT 8 cut(s) 160, 216, 250, 474, 728, 804, 904, 1114
Mly113I GGCGCC 1 cut(s) 884
MlyI GAGTC 1 cut(s) 625
Mph1103I ATGCAT 2 cut(s) 80, 388
MseI TTAA 9 cut(s) 39, 170, 276, 429, 473, 507, 693, 825, 1301
MspI CCGG 1 cut(s) 1165
MunI CAATTG 1 cut(s) 250
Mva1269I GAATGC 1 cut(s) 1160
NarI GGCGCC 1 cut(s) 884
NdeI CATATG 1 cut(s) 969
NdeII GATC 6 cut(s) 49, 657, 937, 964, 1017, 1048
NlaIII CATG 9 cut(s) 49, 58, 82, 386, 553, 628, 755, 1025, 1258
NlaIV GGNNCC 3 cut(s) 240, 643, 885
NmuCI GTSAC 3 cut(s) 191, 361, 1105
NsiI ATGCAT 2 cut(s) 80, 388
NspI RCATGY 1 cut(s) 386
PciSI GCTCTTC 1 cut(s) 1263
PctI GAATGC 1 cut(s) 1160
PfeI GAWTC 1 cut(s) 1292
PflFI GACNNNGTC 1 cut(s) 551
PkrI GCNGC 2 cut(s) 949, 1132
PleI GAGTC 1 cut(s) 624
PluTI GGCGCC 1 cut(s) 887
PpsI GAGTC 1 cut(s) 624
Ppu21I YACGTR 1 cut(s) 261
PsiI TTATAA 3 cut(s) 20, 704, 1113
PspN4I GGNNCC 3 cut(s) 240, 643, 885
PspOMI GGGCCC 1 cut(s) 238
PspPI GGNCC 4 cut(s) 238, 239, 553, 814
PstNI CAGNNNCTG 1 cut(s) 817
PsuI RGATCY 1 cut(s) 937
PsyI GACNNNGTC 1 cut(s) 551
RsaI GTAC 3 cut(s) 263, 381, 1343
RsaNI GTAC 3 cut(s) 262, 380, 1342
SapI GCTCTTC 1 cut(s) 1263
SaqAI TTAA 9 cut(s) 39, 170, 276, 429, 473, 507, 693, 825, 1301
SatI GCNGC 2 cut(s) 948, 1131
Sau3AI GATC 6 cut(s) 49, 657, 937, 964, 1017, 1048
Sau96I GGNCC 4 cut(s) 238, 239, 553, 814
ScaI AGTACT 1 cut(s) 1343
SchI GAGTC 1 cut(s) 625
SduI GDGCHC 4 cut(s) 242, 1057, 1149, 1239
SfaNI GCATC 1 cut(s) 69
SfoI GGCGCC 1 cut(s) 885
SinI GGWCC 1 cut(s) 553
SmlI CTYRAG 1 cut(s) 1243
SmoI CTYRAG 1 cut(s) 1243
Sse9I AATT 8 cut(s) 160, 216, 250, 474, 728, 804, 904, 1114
SspDI GGCGCC 1 cut(s) 883
SspMI CTAG 2 cut(s) 126, 869
TaaI ACNGT 1 cut(s) 180
TaiI ACGT 2 cut(s) 263, 750
TaqI TCGA 2 cut(s) 619, 1308
TasI AATT 8 cut(s) 160, 216, 250, 474, 728, 804, 904, 1114
TatI WGTACW 2 cut(s) 379, 1341
TfiI GAWTC 1 cut(s) 1292
Tru1I TTAA 9 cut(s) 39, 170, 276, 429, 473, 507, 693, 825, 1301
Tru9I TTAA 9 cut(s) 39, 170, 276, 429, 473, 507, 693, 825, 1301
TscAI CASTG 2 cut(s) 1225, 1244
TseFI GTSAC 3 cut(s) 191, 361, 1105
TseI GCWGC 2 cut(s) 947, 1130
Tsp45I GTSAC 3 cut(s) 191, 361, 1105
TspDTI ATGAA 8 cut(s) 524, 575, 641, 768, 783, 1191, 1271, 1295
TspGWI ACGGA 1 cut(s) 528
TspRI CASTG 2 cut(s) 1225, 1244
Tth111I GACNNNGTC 1 cut(s) 551
VpaK11BI GGWCC 1 cut(s) 553
XceI RCATGY 1 cut(s) 386
XmiI GTMKAC 2 cut(s) 1001, 1327
XspI CTAG 2 cut(s) 126, 869
ZrmI AGTACT 1 cut(s) 1343
Zsp2I ATGCAT 2 cut(s) 80, 388
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.