MD04G1174700.v1.1

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr04
OG0015649
Physical Location & Seq
Reverse (-)
26604309 .. 26605814
1506 bp
Loading structure...
UTR
Exon/CDS
Intron
MD04G1174700.v1.1.491

Sequence Viewer

Length: 1506 bp
ATGCCTTCTTCGTACCCAGCACCCTGCACACTTTTTCACTCTCCATCTCCATCTCCTTTCTGGAGAACCCAATACAGCAGTAAGCTGCTTTTCCTCGCAGCACTTTCATCCTCAGCTACAAATCCGACCAAAATCCACCAGAAGCCCCCAAAAGATTACATCTTTCAGTCCAAAAACGAAAACCCAAATCCGAGTTTTGACAACCCAGCCAGCAGATTGCAGGTGCAGGATTTCATTGACAGAATCAGAGCTCTGCCCTTAAAAAAAACAAGTGAAATTCATGGTGTTTTTGAAAAAGATGGTTGTTTTCAAACCGCATCTGAATTCAATTCTCTGCTGATGGCTCTGGTAATAGCACAAGAGCCTGATATTGCCTTGAGCTTGTTTGATGAAATATCATCAGCTCTGTGGTTGGTGCCAGATTCTCTGACATTTTCCATCCTGATAAGGTGTTACTGCGGTAAAAACGATCTGGATGGGGCCAGAGGGGTTTTAACCCACATGGTGGAAAATGGGTTTTACCCAGATCCTGCAACTTTTACTGTTCTGGTAAATGCATTCTGCAAGAGGGGTAGATTGCAGAGGGCTATGGAGGTTGTTGAGGTGATGGGTAGGGTTGGTTTGAAGCCCACAGTGCAGATTTACAATTGCTTGCTGAAGGGGTTATGTTATGTGGGGAGAGTGGAGGATGCATATGATATGCTGATGAGAATAAAGAAAGATGAAGTGAAACCTGATATATATACATTCACTGCTGTTATGGATGGATTTTGTAAAGTGGGTCGATCGGATGAGGCGATGGAATTGCTCGTGGAAGCGATGGAGAGCGGGTTGATTCCGGATGCGGTGAGCTTCAATGCTCTGTTTCATGGATACTGCAAGGAAGGGAGGCCCATGGAGGGGCTCAATGTGTTGAAGAAGATGAAGGAGATGAACTGCATTCCTGATTGTATCACTTACAGTAGTTTGCTGCATGGACTGTTGAAATGGGGGAAGATTCGAAATGCGGTTGGGGTTTATGAGGAGATGGTGGAAAATGGGTTTGAAGTGGAGGAGAGATTGATGAACAATCTTGTGAGAGGGTTGTGTAGGAGATCATGGAAGGAAAAAGACCTCTTGGAAGATGCACACCAAGTGTTTGAGAAAATGCAGAGCGGGCATTCGGGTATAGATGCGAGTACGTATGGCCTCATGATCCAGAGTCTTTGCATGGGGAAGAAGATGGACGAGTCTTTGGTCAGTTTGCAGCAGATGGTTCGAACGGGGCATTCGCCATGGATCGTCACCTTTAACAATGTGATTCAAGGCCTTTGTGTTGAGGGAAAGGTATTCGAGGCATTGTTAGTTTTGAGCATCATGTTCGAAGGGGGTAGAGCAACCGGTAGGGTATCGTATAACCCTGTAATCCAAGAACTGAATCGACAGGGGAGTTTCCTCGGTGCTTGTAGCGTTTATGGCGCGGCGTTGAAGAGAGGTGTAATTCCTAATAAAAAACCTCAACAATGA
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_1 PPR_2 PPR_3

Protein Analysis

502

Amino Acids

56.05

Weight (kDa)

7.07

Isoelectric Point (pI)

37.0

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_long PF17177 128 - 243 1.4e-08 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 140 - 189 9.2e-12 PPR repeat family
PPR_3 PF13812 164 - 220 1.6e-09 Pentatricopeptide repeat domain
PPR_1 PF12854 171 - 203 1.9e-08 PPR repeat
PPR_2 PF13041 179 - 223 8.1e-09 PPR repeat family
TPR_24 PF23276 180 - 269 2.1e-08 Fungal tetratrico peptide repeats
PPR_1 PF12854 207 - 235 7.7e-07 PPR repeat
PPR_2 PF13041 210 - 259 4.6e-14 PPR repeat family
PPR_3 PF13812 238 - 292 1.8e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 242 - 272 5.6e-09 PPR repeat
PPR_2 PF13041 249 - 291 5.8e-08 PPR repeat family
PPR_3 PF13812 269 - 324 1.7e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 277 - 309 4.6e-07 PPR repeat
PPR_2 PF13041 280 - 329 4.5e-15 PPR repeat family
PPR PF01535 283 - 313 1.4e-07 PPR repeat
PPR_2 PF13041 318 - 364 5.5e-06 PPR repeat family
PPR PF01535 318 - 348 3.1e-06 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0015649)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g09870
malus_domestica MD04G1174700.v1.1
prunus_persica Prupe.6G293600_v2.0.a1
pyrus_communis pycom04g15410
rosa_chinensis RchiOBHm_Chr3g0460471
rosa_laevigata RLG00000025002 RLG00000025008
rosa_multiflora Rmu_co8379257.1_g000001 Rmu_sc0004267.1_g000007
rosa_roxburghii Rroxscaffold_6G00419450
rosa_rugosa Rorug03G0042900
rosa_samantha Rh3AG101000 Rh3BG105000 Rh3CG106800 Rh3DG106300
rosa_wichuraiana Rw3G008590

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 211
Acc36I ACCTGC 1 cut(s) 211
AccB1I GGYRCC 1 cut(s) 415
AccB7I CCANNNNNTGG 1 cut(s) 505
AccBSI CCGCTC 2 cut(s) 828, 1155
AccII CGCG 1 cut(s) 1460
AccIII TCCGGA 1 cut(s) 838
AciI CCGC 7 cut(s) 315, 459, 828, 845, 1007, 1155, 1460
AclWI GGATC 3 cut(s) 521, 1189, 1286
AcsI RAATTY 2 cut(s) 276, 323
AcuI CTGAAG 1 cut(s) 677
AdeI CACNNNGTG 2 cut(s) 505, 1135
AfaI GTAC 2 cut(s) 14, 1180
AfiI CCNNNNNNNGG 3 cut(s) 505, 899, 900
AgeI ACCGGT 1 cut(s) 1379
AluBI AGCT 6 cut(s) 85, 116, 251, 381, 404, 852
AluI AGCT 6 cut(s) 85, 116, 251, 381, 404, 852
Alw21I GWGCWC 1 cut(s) 253
AlwI GGATC 3 cut(s) 521, 1189, 1286
AlwNI CAGNNNCTG 1 cut(s) 530
Aor13HI TCCGGA 1 cut(s) 838
AoxI GGCC 4 cut(s) 480, 890, 1186, 1306
ApeKI GCWGC 4 cut(s) 85, 98, 970, 1246
ApoI RAATTY 2 cut(s) 276, 323
AsiGI ACCGGT 1 cut(s) 1379
AspLEI GCGC 1 cut(s) 1460
AspS9I GGNCC 2 cut(s) 480, 891
AsuHPI GGTGA 3 cut(s) 616, 859, 1276
AsuII TTCGAA 3 cut(s) 1000, 1258, 1362
BanI GGYRCC 1 cut(s) 415
BanII GRGCYC 2 cut(s) 253, 906
BauI CACGAG 1 cut(s) 809
Bbv12I GWGCWC 1 cut(s) 253
BbvCI CCTCAGC 1 cut(s) 112
BbvI GCAGC 4 cut(s) 72, 110, 957, 1258
BcgI CGANNNNNNTGC 6 cut(s) 787, 821, 1238, 1272, 1342, 1376
BciVI GTATCC 1 cut(s) 866
BfuAI ACCTGC 1 cut(s) 211
BfuI GTATCC 1 cut(s) 866
BisI GCNGC 5 cut(s) 86, 99, 971, 1247, 1461
BlsI GCNGC 5 cut(s) 87, 100, 972, 1248, 1462
BmgT120I GGNCC 2 cut(s) 480, 891
BmiI GGNNCC 2 cut(s) 417, 481
BmsI GCATC 6 cut(s) 326, 679, 832, 1114, 1162, 1362
BpmI CTGGAG 1 cut(s) 82
Bpu10I CCTNAGC 1 cut(s) 112
Bpu14I TTCGAA 3 cut(s) 1000, 1258, 1362
BpuEI CTTGAG 1 cut(s) 397
BsaAI YACGTR 1 cut(s) 1182
BsaJI CCNNGG 3 cut(s) 894, 1274, 1435
BsaWI WCCGGW 2 cut(s) 838, 1379
BsaXI ACNNNNNCTCC 2 cut(s) 815, 845
Bsc4I CCNNNNNNNGG 3 cut(s) 505, 899, 900
Bse118I RCCGGY 1 cut(s) 1379
BseAI TCCGGA 1 cut(s) 838
BseDI CCNNGG 3 cut(s) 894, 1274, 1435
BseGI GGATG 7 cut(s) 107, 438, 481, 694, 769, 796, 847
BseLI CCNNNNNNNGG 3 cut(s) 505, 899, 900
BseMII CTCAG 1 cut(s) 126
BseRI GAGGAG 2 cut(s) 1037, 1067
BseXI GCAGC 4 cut(s) 72, 110, 957, 1258
BseYI CCCAGC 2 cut(s) 16, 205
BsgI GTGCAG 3 cut(s) 10, 245, 656
Bsh1236I CGCG 1 cut(s) 1460
Bsh1285I CGRYCG 1 cut(s) 788
BshFI GGCC 4 cut(s) 482, 892, 1188, 1308
BshNI GGYRCC 1 cut(s) 415
BshTI ACCGGT 1 cut(s) 1379
BsiEI CGRYCG 1 cut(s) 788
BsiHKAI GWGCWC 1 cut(s) 253
BsiSI CCGG 2 cut(s) 839, 1380
BslI CCNNNNNNNGG 3 cut(s) 505, 899, 900
BsmI GAATGC 4 cut(s) 557, 939, 1159, 1267
BsnI GGCC 4 cut(s) 482, 892, 1188, 1308
Bsp119I TTCGAA 3 cut(s) 1000, 1258, 1362
Bsp1286I GDGCHC 2 cut(s) 253, 906
Bsp13I TCCGGA 1 cut(s) 838
Bsp143I GATC 6 cut(s) 469, 526, 785, 1094, 1194, 1278
Bsp19I CCATGG 2 cut(s) 894, 1274
BspACI CCGC 7 cut(s) 315, 459, 828, 845, 1007, 1155, 1460
BspANI GGCC 4 cut(s) 482, 892, 1188, 1308
BspCNI CTCAG 1 cut(s) 125
BspEI TCCGGA 1 cut(s) 838
BspFNI CGCG 1 cut(s) 1460
BspHI TCATGA 1 cut(s) 1191
BspLI GGNNCC 2 cut(s) 417, 481
BspMI ACCTGC 1 cut(s) 211
BspPI GGATC 3 cut(s) 521, 1189, 1286
BspT104I TTCGAA 3 cut(s) 1000, 1258, 1362
BspT107I GGYRCC 1 cut(s) 415
BsrBI CCGCTC 2 cut(s) 828, 1155
BsrFI RCCGGY 1 cut(s) 1379
BssAI RCCGGY 1 cut(s) 1379
BssECI CCNNGG 3 cut(s) 894, 1274, 1435
BssMI GATC 6 cut(s) 469, 526, 785, 1094, 1194, 1278
BssSI CACGAG 1 cut(s) 809
BssT1I CCWWGG 2 cut(s) 894, 1274
Bst2BI CACGAG 1 cut(s) 809
Bst4CI ACNGT 4 cut(s) 544, 634, 962, 981
Bst6I CTCTTC 1 cut(s) 1463
BstBAI YACGTR 1 cut(s) 1182
BstBI TTCGAA 3 cut(s) 1000, 1258, 1362
BstC8I GCNNGC 3 cut(s) 211, 653, 1157
BstDEI CTNAG 1 cut(s) 112
BstDSI CCRYGG 2 cut(s) 894, 1274
BstF5I GGATG 7 cut(s) 107, 438, 481, 694, 769, 796, 847
BstFNI CGCG 1 cut(s) 1460
BstHHI GCGC 1 cut(s) 1460
BstKTI GATC 6 cut(s) 472, 529, 788, 1097, 1197, 1281
BstMBI GATC 6 cut(s) 469, 526, 785, 1094, 1194, 1278
BstMCI CGRYCG 1 cut(s) 788
BstMWI GCNNNNNNNGC 3 cut(s) 634, 1156, 1455
BstSNI TACGTA 1 cut(s) 1182
BstUI CGCG 1 cut(s) 1460
BstV1I GCAGC 4 cut(s) 72, 110, 957, 1258
BstX2I RGATCY 1 cut(s) 526
BstYI RGATCY 1 cut(s) 526
BsuI GTATCC 1 cut(s) 866
BsuRI GGCC 4 cut(s) 482, 892, 1188, 1308
BtgI CCRYGG 2 cut(s) 894, 1274
BtgZI GCGATG 2 cut(s) 812, 833
BtsCI GGATG 7 cut(s) 107, 438, 481, 694, 769, 796, 847
BtsI GCAGTG 1 cut(s) 750
BtsIMutI CAGTG 2 cut(s) 639, 750
BveI ACCTGC 1 cut(s) 211
Cac8I GCNNGC 3 cut(s) 211, 653, 1157
CaiI CAGNNNCTG 1 cut(s) 530
CciI TCATGA 1 cut(s) 1191
CfoI GCGC 1 cut(s) 1460
Cfr10I RCCGGY 1 cut(s) 1379
Cfr13I GGNCC 2 cut(s) 480, 891
Csp6I GTAC 2 cut(s) 13, 1179
CspAI ACCGGT 1 cut(s) 1379
CviQI GTAC 2 cut(s) 13, 1179
DdeI CTNAG 1 cut(s) 112
DpnI GATC 6 cut(s) 471, 528, 787, 1096, 1196, 1280
DpnII GATC 6 cut(s) 469, 526, 785, 1094, 1194, 1278
DraIII CACNNNGTG 2 cut(s) 505, 1135
Eam1104I CTCTTC 1 cut(s) 1463
EarI CTCTTC 1 cut(s) 1463
Ecl136II GAGCTC 1 cut(s) 251
Eco105I TACGTA 1 cut(s) 1182
Eco130I CCWWGG 2 cut(s) 894, 1274
Eco147I AGGCCT 1 cut(s) 1308
Eco24I GRGCYC 2 cut(s) 253, 906
Eco53kI GAGCTC 1 cut(s) 251
Eco57I CTGAAG 1 cut(s) 677
EcoICRI GAGCTC 1 cut(s) 251
EcoRI GAATTC 1 cut(s) 323
EcoT14I CCWWGG 2 cut(s) 894, 1274
EcoT22I ATGCAT 2 cut(s) 559, 694
EcoT38I GRGCYC 2 cut(s) 253, 906
ErhI CCWWGG 2 cut(s) 894, 1274
FauI CCCGC 2 cut(s) 821, 1148
FauNDI CATATG 1 cut(s) 694
Fnu4HI GCNGC 5 cut(s) 86, 99, 971, 1247, 1461
FokI GGATG 7 cut(s) 94, 425, 488, 701, 776, 803, 854
FriOI GRGCYC 2 cut(s) 253, 906
Fsp4HI GCNGC 5 cut(s) 86, 99, 971, 1247, 1461
GlaI GCGC 1 cut(s) 1459
GluI GCNGC 5 cut(s) 86, 99, 971, 1247, 1461
GsaI CCCAGC 2 cut(s) 20, 209
GsuI CTGGAG 1 cut(s) 82
HaeIII GGCC 4 cut(s) 482, 892, 1188, 1308
HapII CCGG 2 cut(s) 839, 1380
HhaI GCGC 1 cut(s) 1460
Hin6I GCGC 1 cut(s) 1458
HinP1I GCGC 1 cut(s) 1458
HinfI GANTC 8 cut(s) 243, 422, 835, 997, 1201, 1229, 1300, 1417
HpaII CCGG 2 cut(s) 839, 1380
HphI GGTGA 3 cut(s) 616, 859, 1276
Hpy188I TCNGA 6 cut(s) 126, 192, 248, 322, 429, 790
Hpy188III TCNNGA 7 cut(s) 61, 442, 473, 839, 944, 1192, 1198
HpyAV CCTTC 6 cut(s) 15, 652, 878, 919, 1096, 1358
HpyCH4III ACNGT 4 cut(s) 544, 634, 962, 981
HpyCH4IV ACGT 1 cut(s) 1181
HpyF10VI GCNNNNNNNGC 3 cut(s) 634, 1156, 1455
HpyF3I CTNAG 1 cut(s) 112
HpySE526I ACGT 1 cut(s) 1181
HspAI GCGC 1 cut(s) 1458
Kpn2I TCCGGA 1 cut(s) 838
Kzo9I GATC 6 cut(s) 469, 526, 785, 1094, 1194, 1278
Lsp1109I GCAGC 4 cut(s) 72, 110, 957, 1258
LweI GCATC 6 cut(s) 326, 679, 832, 1114, 1162, 1362
MaeII ACGT 1 cut(s) 1181
MaeIII GTNAC 2 cut(s) 452, 1282
MalI GATC 6 cut(s) 471, 528, 787, 1096, 1196, 1280
MbiI CCGCTC 2 cut(s) 828, 1155
MboI GATC 6 cut(s) 469, 526, 785, 1094, 1194, 1278
MboII GAAGA 7 cut(s) 928, 931, 1006, 1133, 1228, 1231, 1480
MfeI CAATTG 1 cut(s) 646
MflI RGATCY 1 cut(s) 526
MhlI GDGCHC 2 cut(s) 253, 906
MluCI AATT 6 cut(s) 276, 323, 328, 646, 803, 1479
MlyI GAGTC 2 cut(s) 1210, 1238
MmeI TCCRAC 1 cut(s) 149
Mph1103I ATGCAT 2 cut(s) 559, 694
MroI TCCGGA 1 cut(s) 838
MseI TTAA 3 cut(s) 260, 494, 1290
MspI CCGG 2 cut(s) 839, 1380
MunI CAATTG 1 cut(s) 646
Mva1269I GAATGC 4 cut(s) 557, 939, 1159, 1267
MvnI CGCG 1 cut(s) 1460
MwoI GCNNNNNNNGC 3 cut(s) 634, 1156, 1455
NcoI CCATGG 2 cut(s) 894, 1274
NdeI CATATG 1 cut(s) 694
NdeII GATC 6 cut(s) 469, 526, 785, 1094, 1194, 1278
NlaIV GGNNCC 2 cut(s) 417, 481
NmuCI GTSAC 1 cut(s) 1282
NsiI ATGCAT 2 cut(s) 559, 694
NspV TTCGAA 3 cut(s) 1000, 1258, 1362
PagI TCATGA 1 cut(s) 1191
PaqCI CACCTGC 1 cut(s) 211
PceI AGGCCT 1 cut(s) 1308
PcsI WCGNNNNNNNCGW 1 cut(s) 794
PctI GAATGC 4 cut(s) 557, 939, 1159, 1267
PfeI GAWTC 6 cut(s) 243, 422, 835, 997, 1300, 1417
PflMI CCANNNNNTGG 1 cut(s) 505
PinAI ACCGGT 1 cut(s) 1379
PkrI GCNGC 5 cut(s) 87, 100, 972, 1248, 1462
Ple19I CGATCG 1 cut(s) 788
PleI GAGTC 2 cut(s) 1209, 1237
PpsI GAGTC 2 cut(s) 1209, 1237
Ppu21I YACGTR 1 cut(s) 1182
Psp124BI GAGCTC 1 cut(s) 253
PspFI CCCAGC 2 cut(s) 16, 205
PspN4I GGNNCC 2 cut(s) 417, 481
PspPI GGNCC 2 cut(s) 480, 891
PstNI CAGNNNCTG 1 cut(s) 530
PsuI RGATCY 1 cut(s) 526
PvuI CGATCG 1 cut(s) 788
RsaI GTAC 2 cut(s) 14, 1180
RsaNI GTAC 2 cut(s) 13, 1179
SacI GAGCTC 1 cut(s) 253
SaqAI TTAA 3 cut(s) 260, 494, 1290
SatI GCNGC 5 cut(s) 86, 99, 971, 1247, 1461
Sau3AI GATC 6 cut(s) 469, 526, 785, 1094, 1194, 1278
Sau96I GGNCC 2 cut(s) 480, 891
SchI GAGTC 2 cut(s) 1210, 1238
SduI GDGCHC 2 cut(s) 253, 906
SfaNI GCATC 6 cut(s) 326, 679, 832, 1114, 1162, 1362
SfuI TTCGAA 3 cut(s) 1000, 1258, 1362
SmlI CTYRAG 1 cut(s) 376
SmoI CTYRAG 1 cut(s) 376
SnaBI TACGTA 1 cut(s) 1182
Sse9I AATT 6 cut(s) 276, 323, 328, 646, 803, 1479
SseBI AGGCCT 1 cut(s) 1308
SsiI CCGC 7 cut(s) 315, 459, 828, 845, 1007, 1155, 1460
SstI GAGCTC 1 cut(s) 253
StuI AGGCCT 1 cut(s) 1308
StyI CCWWGG 2 cut(s) 894, 1274
TaaI ACNGT 4 cut(s) 544, 634, 962, 981
TaiI ACGT 1 cut(s) 1184
TaqI TCGA 6 cut(s) 784, 1000, 1258, 1332, 1362, 1420
TasI AATT 6 cut(s) 276, 323, 328, 646, 803, 1479
TauI GCSGC 1 cut(s) 1463
TfiI GAWTC 6 cut(s) 243, 422, 835, 997, 1300, 1417
Tru1I TTAA 3 cut(s) 260, 494, 1290
Tru9I TTAA 3 cut(s) 260, 494, 1290
TscAI CASTG 2 cut(s) 639, 757
TseFI GTSAC 1 cut(s) 1282
TseI GCWGC 4 cut(s) 85, 98, 970, 1246
Tsp45I GTSAC 1 cut(s) 1282
TspDTI ATGAA 9 cut(s) 96, 223, 269, 405, 738, 857, 938, 947, 1079
TspRI CASTG 2 cut(s) 639, 757
Van91I CCANNNNNTGG 1 cut(s) 505
XapI RAATTY 2 cut(s) 276, 323
XcmI CCANNNNNNNNNTGG 1 cut(s) 57
Zsp2I ATGCAT 2 cut(s) 559, 694
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.