MD08G1069300.v1.1

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr08
OG0008873
Physical Location & Seq
Reverse (-)
5503251 .. 5504939
1689 bp
Loading structure...
UTR
Exon/CDS
Intron
MD08G1069300.v1.1.491

Sequence Viewer

Length: 1689 bp
ATGGCCACGCCACCAAGAACCCTAATCAAGCCATCTCACACATCTCCAAATTTCTCTCTCTTAACCTCCATAACCTACGTTCTGCAAACCCTAAATCCCCAAAAACCCAACCCCTCCAATGTCAGCTCAGCCCCTCTTAACCAGTTTTCACCTCACCTGAACCCAAGACTTGTTACCCAAGTCATCAAATCTCAGACCAATCCTTACCATGCCCTCTTCTTCTTCAACTGGGCCTCAAATCCCAACCCTAATCCCAACAAATACTCCCACACTCACAATTGCTACTTGGCCATCACCGACCTCCTCCTCTCCCACTCTCTCTTCTCCACCGCCGCCTCACTACTTGTAGAATCCAACAGACTCTATGATTTCTTGCTCGGCAGGTTCATCACCGCTCACGGTGGATTGGGTGATATCCGAGCCGCCATGGATTGGTTTCACAGGGCAAAGATGATTGAGAGTGGGAAATGCTTGTTTTCGTACAATGCTATTTTGGGTGTGCTTGTTAGGGCAAACAGGATGAGTTTAGCTAAGGCAATTTATGATCAGATTGTGAAGGAAGGTTTGGTGAAGCCGGATGTTTCGACTTGTACGATAATGATCAGGGGGTTCTGCAAAAGGGGTGAAATTGAGAATGCCCGGAAGGTGTTTGATGAAATGACTTGTGAGCCGAATGTGATTACTTACAATACTATAATTCACGGGTTTTGTAAGACGGGTGATTTCAATAGTGCGGTGCGAGTTTTGGGCCGGATGAGGGAGAGTAAGGATTGCTTGCCTGGTACGGTAACTTATACAACTTTGATTGATGGGTATTGTAAGAAAGGCGAGTTGGAGGAGGCGATGAAGTGTATGAGTGAAATGGAGAAGCAGGGTTGTGAGCCTAATCTATTTACTTACAATGCTTTAATTCATGGTTTGTGTTTGAGTGGGAATGTTGGTGAGGCAAAGAGGATGGTGACAAAGATGAGGTTAAATGGTGTGAAGGACGATATAGCAACACATACGGCTATCTTGAAAGGGCTTTGCATTGCGGGGAGGCCTGACGACGCTGCTAAACATCTTAAAGATATAGTGAGCCTTGGGATGAAACCGGATGTGGCAGCATACGGGATCGTTTTTAATGAGTACTGTAAGATGAGAAACCCGGATGGAGCTGTTTCCTTTTTGAGGGAAATGCGGATGAGAGGCCTAGAGCCAGGTGTTTCAAACTTCAATAGACTGCTAACCGTTCTTGTGGAAAACGGGGACCTGGAAAGAGCTATTGTTCTTCTGAAGCAGATGCCACAGATGGGCTGCTCCCCAAATTTCTTTTCGTATAACACAGTGATAAGTAGTCTTTGTGATATGAGAGGTAGAATGGGGGTAGTTGAGGAGCTTGTTCATGACATGCTTCAGAATGGTCATGAGCTTGATACCGCCCTCTACAGTCGCGTGATTAAGGGTTATTGTGAGGATGGCAATGTGAAAATGGCAATGCAGGCTTTCTGTGCAGCACTGGATGCTAAATACATTATTAGTTTGGAGAGCTTTTCGGTTTTTGTCAAGGAGTTATGTGCGAAAGGGATGGTCGTTGAGGCTGAGAGGGTATTTGACGATATGCATAAGAGATGCACCGTGGCTGATGTGGATAATTACAGAAGGGTGCTAGATGAGCATTTTAGGGAGATAACTGAGGATACTTGGTAG
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

563

Amino Acids

62.98

Weight (kDa)

8.01

Isoelectric Point (pI)

27.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 157 - 206 2.4e-10 PPR repeat family
PPR_3 PF13812 183 - 233 2.7e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 190 - 221 3.1e-09 PPR repeat
PPR_2 PF13041 192 - 221 1.7e-07 PPR repeat family
PPR PF01535 195 - 221 1.3e-06 PPR repeat
PPR_1 PF12854 221 - 253 4.8e-13 PPR repeat
PPR_2 PF13041 224 - 270 3.3e-13 PPR repeat family
PPR PF01535 227 - 255 6.2e-07 PPR repeat
PPR_1 PF12854 256 - 289 1.2e-12 PPR repeat
PPR_2 PF13041 260 - 308 8.1e-22 PPR repeat family
PPR_3 PF13812 262 - 305 2.3e-11 Pentatricopeptide repeat domain
PPR PF01535 263 - 293 8.9e-11 PPR repeat
PPR_1 PF12854 292 - 324 1.2e-12 PPR repeat
PPR_2 PF13041 295 - 343 4.9e-11 PPR repeat family
PPR PF01535 298 - 328 9.1e-06 PPR repeat
PPR_long PF17177 318 - 428 4.2e-06 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 331 - 379 1.5e-07 PPR repeat family
TPR_24 PF23276 386 - 496 9.3e-06 Fungal tetratrico peptide repeats
PPR_3 PF13812 389 - 446 1.2e-10 Pentatricopeptide repeat domain
PPR_2 PF13041 400 - 449 3.5e-11 PPR repeat family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 372
AccB7I CCANNNNNTGG 1 cut(s) 432
AccBSI CCGCTC 1 cut(s) 395
AccII CGCG 1 cut(s) 1434
AciI CCGC 8 cut(s) 330, 333, 393, 423, 734, 1034, 1180, 1419
AclWI GGATC 1 cut(s) 1121
AcoI YGGCCR 2 cut(s) 3, 288
AcsI RAATTY 2 cut(s) 49, 1306
AcuI CTGAAG 2 cut(s) 1295, 1379
AfaI GTAC 4 cut(s) 482, 592, 784, 1130
AfiI CCNNNNNNNGG 4 cut(s) 432, 757, 1170, 1292
AgsI TTSAA 5 cut(s) 226, 727, 1018, 1209, 1216
AjnI CCWGG 3 cut(s) 778, 1198, 1251
AjuI GAANNNNNNNTTGG 6 cut(s) 548, 580, 815, 847, 1297, 1329
AluBI AGCT 7 cut(s) 126, 530, 1157, 1262, 1378, 1411, 1530
AluI AGCT 7 cut(s) 126, 530, 1157, 1262, 1378, 1411, 1530
AlwI GGATC 1 cut(s) 1121
AoxI GGCC 6 cut(s) 3, 231, 288, 748, 1040, 1189
ApeKI GCWGC 4 cut(s) 1052, 1103, 1296, 1493
ApoI RAATTY 2 cut(s) 49, 1306
AspS9I GGNCC 3 cut(s) 231, 748, 1249
AsuC2I CCSGG 2 cut(s) 640, 1148
AvaII GGWCC 1 cut(s) 1249
BalI TGGCCA 2 cut(s) 5, 290
BbvI GCAGC 4 cut(s) 1039, 1115, 1283, 1505
BccI CCATC 8 cut(s) 40, 299, 803, 949, 1145, 1285, 1451, 1561
BceAI ACGGC 1 cut(s) 1023
BciT130I CCWGG 3 cut(s) 780, 1200, 1253
BciVI GTATCC 1 cut(s) 1672
BclI TGATCA 2 cut(s) 544, 600
BcnI CCSGG 2 cut(s) 640, 1148
BfaI CTAG 2 cut(s) 1193, 1649
BfmI CTRYAG 1 cut(s) 1426
BfuAI ACCTGC 1 cut(s) 372
BfuI GTATCC 1 cut(s) 1672
BisI GCNGC 6 cut(s) 333, 423, 1053, 1104, 1297, 1494
BlpI GCTNAGC 1 cut(s) 127
BlsI GCNGC 6 cut(s) 334, 424, 1054, 1105, 1298, 1495
BmcAI AGTACT 1 cut(s) 1130
Bme1390I CCNGG 5 cut(s) 640, 780, 1148, 1200, 1253
Bme18I GGWCC 1 cut(s) 1249
BmgT120I GGNCC 3 cut(s) 231, 748, 1249
BmiI GGNNCC 1 cut(s) 1250
BmrFI CCNGG 5 cut(s) 640, 780, 1148, 1200, 1253
BmrI ACTGGG 1 cut(s) 238
BmsI GCATC 3 cut(s) 1272, 1492, 1601
BmuI ACTGGG 1 cut(s) 238
Bpu10I CCTNAGC 1 cut(s) 531
Bpu1102I GCTNAGC 1 cut(s) 127
BpuMI CCSGG 2 cut(s) 640, 1148
BsaBI GATNNNNATC 1 cut(s) 599
BsaJI CCNNGG 3 cut(s) 426, 1081, 1617
BsaWI WCCGGW 1 cut(s) 1093
BsaXI ACNNNNNCTCC 2 cut(s) 248, 278
Bsc4I CCNNNNNNNGG 4 cut(s) 432, 757, 1170, 1292
Bse1I ACTGG 3 cut(s) 142, 233, 1503
Bse3DI GCAATG 3 cut(s) 1029, 1468, 1482
Bse8I GATNNNNATC 1 cut(s) 599
BseBI CCWGG 3 cut(s) 780, 1200, 1253
BseDI CCNNGG 3 cut(s) 426, 1081, 1617
BseJI GATNNNNATC 1 cut(s) 599
BseLI CCNNNNNNNGG 4 cut(s) 432, 757, 1170, 1292
BseMI GCAATG 3 cut(s) 1029, 1468, 1482
BseMII CTCAG 4 cut(s) 141, 206, 1572, 1665
BseNI ACTGG 3 cut(s) 142, 233, 1503
BseRI GAGGAG 4 cut(s) 293, 296, 851, 1388
BseXI GCAGC 4 cut(s) 1039, 1115, 1283, 1505
BsgI GTGCAG 1 cut(s) 1512
Bsh1236I CGCG 1 cut(s) 1434
BshFI GGCC 6 cut(s) 5, 233, 290, 750, 1042, 1191
BsiSI CCGG 5 cut(s) 575, 640, 751, 1094, 1148
BslFI GGGAC 1 cut(s) 1262
BslI CCNNNNNNNGG 4 cut(s) 432, 757, 1170, 1292
BsmFI GGGAC 1 cut(s) 1262
BsmI GAATGC 1 cut(s) 640
BsnI GGCC 6 cut(s) 5, 233, 290, 750, 1042, 1191
Bsp143I GATC 3 cut(s) 544, 600, 1113
Bsp1720I GCTNAGC 1 cut(s) 127
Bsp19I CCATGG 1 cut(s) 426
BspACI CCGC 8 cut(s) 330, 333, 393, 423, 734, 1034, 1180, 1419
BspANI GGCC 6 cut(s) 5, 233, 290, 750, 1042, 1191
BspCNI CTCAG 4 cut(s) 140, 205, 1573, 1666
BspFNI CGCG 1 cut(s) 1434
BspHI TCATGA 2 cut(s) 1384, 1405
BspLI GGNNCC 1 cut(s) 1250
BspMI ACCTGC 1 cut(s) 372
BspPI GGATC 1 cut(s) 1121
BsrBI CCGCTC 1 cut(s) 395
BsrDI GCAATG 3 cut(s) 1029, 1468, 1482
BsrI ACTGG 3 cut(s) 142, 233, 1503
BssECI CCNNGG 3 cut(s) 426, 1081, 1617
BssMI GATC 3 cut(s) 544, 600, 1113
BssT1I CCWWGG 2 cut(s) 426, 1081
Bst2UI CCWGG 3 cut(s) 780, 1200, 1253
Bst4CI ACNGT 7 cut(s) 401, 787, 1133, 1231, 1327, 1430, 1618
Bst6I CTCTTC 2 cut(s) 221, 326
BstAPI GCANNNNNTGC 1 cut(s) 1502
BstC8I GCNNGC 2 cut(s) 776, 1482
BstDEI CTNAG 5 cut(s) 127, 192, 531, 1581, 1674
BstDSI CCRYGG 2 cut(s) 426, 1617
BstENI CCTNNNNNAGG 1 cut(s) 1168
BstFNI CGCG 1 cut(s) 1434
BstKTI GATC 3 cut(s) 547, 603, 1116
BstMBI GATC 3 cut(s) 544, 600, 1113
BstMWI GCNNNNNNNGC 4 cut(s) 1481, 1490, 1502, 1654
BstNI CCWGG 3 cut(s) 780, 1200, 1253
BstNSI RCATGY 1 cut(s) 1393
BstSCI CCNGG 5 cut(s) 638, 778, 1146, 1198, 1251
BstSFI CTRYAG 1 cut(s) 1426
BstUI CGCG 1 cut(s) 1434
BstV1I GCAGC 4 cut(s) 1039, 1115, 1283, 1505
BsuI GTATCC 1 cut(s) 1672
BsuRI GGCC 6 cut(s) 5, 233, 290, 750, 1042, 1191
BtgI CCRYGG 2 cut(s) 426, 1617
BtgZI GCGATG 1 cut(s) 857
BtsIMutI CAGTG 2 cut(s) 1332, 1496
BveI ACCTGC 1 cut(s) 372
Cac8I GCNNGC 2 cut(s) 776, 1482
CciI TCATGA 2 cut(s) 1384, 1405
Cfr13I GGNCC 3 cut(s) 231, 748, 1249
CseI GACGC 1 cut(s) 1058
Csp6I GTAC 4 cut(s) 481, 591, 783, 1129
CviAII CATG 6 cut(s) 209, 427, 914, 1385, 1390, 1406
CviQI GTAC 4 cut(s) 481, 591, 783, 1129
DdeI CTNAG 5 cut(s) 127, 192, 531, 1581, 1674
DpnI GATC 3 cut(s) 546, 602, 1115
DpnII GATC 3 cut(s) 544, 600, 1113
EaeI YGGCCR 2 cut(s) 3, 288
Eam1104I CTCTTC 2 cut(s) 221, 326
EarI CTCTTC 2 cut(s) 221, 326
Eco130I CCWWGG 2 cut(s) 426, 1081
Eco147I AGGCCT 2 cut(s) 1042, 1191
Eco32I GATATC 1 cut(s) 415
Eco47I GGWCC 1 cut(s) 1249
Eco57I CTGAAG 2 cut(s) 1295, 1379
EcoNI CCTNNNNNAGG 1 cut(s) 1168
EcoO109I RGGNCCY 1 cut(s) 1249
EcoRII CCWGG 3 cut(s) 778, 1198, 1251
EcoRV GATATC 1 cut(s) 415
EcoT14I CCWWGG 2 cut(s) 426, 1081
EcoT22I ATGCAT 1 cut(s) 1605
ErhI CCWWGG 2 cut(s) 426, 1081
FaeI CATG 6 cut(s) 212, 430, 917, 1388, 1393, 1409
FalI AAGNNNNNCTT 2 cut(s) 758, 790
FaqI GGGAC 1 cut(s) 1262
FatI CATG 6 cut(s) 208, 426, 913, 1384, 1389, 1405
FauI CCCGC 1 cut(s) 1027
FbaI TGATCA 2 cut(s) 544, 600
Fnu4HI GCNGC 6 cut(s) 333, 423, 1053, 1104, 1297, 1494
Fsp4HI GCNGC 6 cut(s) 333, 423, 1053, 1104, 1297, 1494
FspBI CTAG 2 cut(s) 1193, 1649
GluI GCNGC 6 cut(s) 333, 423, 1053, 1104, 1297, 1494
HaeIII GGCC 6 cut(s) 5, 233, 290, 750, 1042, 1191
HapII CCGG 5 cut(s) 575, 640, 751, 1094, 1148
HgaI GACGC 1 cut(s) 1058
Hin1II CATG 6 cut(s) 212, 430, 917, 1388, 1393, 1409
HinfI GANTC 2 cut(s) 350, 360
HpaII CCGG 5 cut(s) 575, 640, 751, 1094, 1148
Hpy188I TCNGA 5 cut(s) 195, 419, 549, 1275, 1398
Hpy188III TCNNGA 3 cut(s) 1015, 1385, 1406
Hpy99I CGWCG 1 cut(s) 1052
HpyAV CCTTC 5 cut(s) 550, 554, 637, 979, 1635
HpyCH4III ACNGT 7 cut(s) 401, 787, 1133, 1231, 1327, 1430, 1618
HpyCH4IV ACGT 1 cut(s) 78
HpyCH4V TGCA 7 cut(s) 85, 615, 1029, 1480, 1493, 1603, 1614
HpyF10VI GCNNNNNNNGC 4 cut(s) 1481, 1490, 1502, 1654
HpyF3I CTNAG 5 cut(s) 127, 192, 531, 1581, 1674
HpySE526I ACGT 1 cut(s) 78
Hsp92II CATG 6 cut(s) 212, 430, 917, 1388, 1393, 1409
Ksp22I TGATCA 2 cut(s) 544, 600
Kzo9I GATC 3 cut(s) 544, 600, 1113
LmnI GCTCC 3 cut(s) 1154, 1304, 1375
Lsp1109I GCAGC 4 cut(s) 1039, 1115, 1283, 1505
LweI GCATC 3 cut(s) 1272, 1492, 1601
MaeI CTAG 2 cut(s) 1193, 1649
MaeII ACGT 1 cut(s) 78
MaeIII GTNAC 3 cut(s) 172, 787, 958
MalI GATC 3 cut(s) 546, 602, 1115
MbiI CCGCTC 1 cut(s) 395
MboI GATC 3 cut(s) 544, 600, 1113
MboII GAAGA 5 cut(s) 208, 211, 214, 313, 1262
MfeI CAATTG 1 cut(s) 277
MlsI TGGCCA 2 cut(s) 5, 290
MluCI AATT 8 cut(s) 49, 277, 537, 627, 696, 909, 1306, 1633
MluNI TGGCCA 2 cut(s) 5, 290
MlyI GAGTC 1 cut(s) 354
MmeI TCCRAC 2 cut(s) 378, 813
Mox20I TGGCCA 2 cut(s) 5, 290
Mph1103I ATGCAT 1 cut(s) 1605
MscI TGGCCA 2 cut(s) 5, 290
MseI TTAA 7 cut(s) 62, 138, 908, 974, 1065, 1122, 1440
Msp20I TGGCCA 2 cut(s) 5, 290
MspI CCGG 5 cut(s) 575, 640, 751, 1094, 1148
MspR9I CCNGG 5 cut(s) 640, 780, 1148, 1200, 1253
MunI CAATTG 1 cut(s) 277
Mva1269I GAATGC 1 cut(s) 640
MvaI CCWGG 3 cut(s) 780, 1200, 1253
MvnI CGCG 1 cut(s) 1434
MwoI GCNNNNNNNGC 4 cut(s) 1481, 1490, 1502, 1654
NciI CCSGG 2 cut(s) 640, 1148
NcoI CCATGG 1 cut(s) 426
NdeII GATC 3 cut(s) 544, 600, 1113
NlaIII CATG 6 cut(s) 212, 430, 917, 1388, 1393, 1409
NlaIV GGNNCC 1 cut(s) 1250
NmeAIII GCCGAG 1 cut(s) 357
NmuCI GTSAC 1 cut(s) 958
NsiI ATGCAT 1 cut(s) 1605
NspI RCATGY 1 cut(s) 1393
PagI TCATGA 2 cut(s) 1384, 1405
PceI AGGCCT 2 cut(s) 1042, 1191
PcsI WCGNNNNNNNCGW 1 cut(s) 590
PctI GAATGC 1 cut(s) 640
PfeI GAWTC 1 cut(s) 350
PflMI CCANNNNNTGG 1 cut(s) 432
PkrI GCNGC 6 cut(s) 334, 424, 1054, 1105, 1298, 1495
PleI GAGTC 1 cut(s) 354
PpsI GAGTC 1 cut(s) 354
PpuMI RGGWCCY 1 cut(s) 1249
Psp5II RGGWCCY 1 cut(s) 1249
Psp6I CCWGG 3 cut(s) 778, 1198, 1251
PspGI CCWGG 3 cut(s) 778, 1198, 1251
PspN4I GGNNCC 1 cut(s) 1250
PspPI GGNCC 3 cut(s) 231, 748, 1249
PspPPI RGGWCCY 1 cut(s) 1249
RsaI GTAC 4 cut(s) 482, 592, 784, 1130
RsaNI GTAC 4 cut(s) 481, 591, 783, 1129
SaqAI TTAA 7 cut(s) 62, 138, 908, 974, 1065, 1122, 1440
SatI GCNGC 6 cut(s) 333, 423, 1053, 1104, 1297, 1494
Sau3AI GATC 3 cut(s) 544, 600, 1113
Sau96I GGNCC 3 cut(s) 231, 748, 1249
ScaI AGTACT 1 cut(s) 1130
SchI GAGTC 1 cut(s) 354
ScrFI CCNGG 5 cut(s) 640, 780, 1148, 1200, 1253
SfaNI GCATC 3 cut(s) 1272, 1492, 1601
SfcI CTRYAG 1 cut(s) 1426
SinI GGWCC 1 cut(s) 1249
Sse9I AATT 8 cut(s) 49, 277, 537, 627, 696, 909, 1306, 1633
SseBI AGGCCT 2 cut(s) 1042, 1191
SsiI CCGC 8 cut(s) 330, 333, 393, 423, 734, 1034, 1180, 1419
SspMI CTAG 2 cut(s) 1193, 1649
StuI AGGCCT 2 cut(s) 1042, 1191
StyD4I CCNGG 5 cut(s) 638, 778, 1146, 1198, 1251
StyI CCWWGG 2 cut(s) 426, 1081
TaaI ACNGT 7 cut(s) 401, 787, 1133, 1231, 1327, 1430, 1618
TaiI ACGT 1 cut(s) 81
TaqI TCGA 1 cut(s) 584
TasI AATT 8 cut(s) 49, 277, 537, 627, 696, 909, 1306, 1633
TatI WGTACW 1 cut(s) 1128
TauI GCSGC 2 cut(s) 335, 425
TfiI GAWTC 1 cut(s) 350
Tru1I TTAA 7 cut(s) 62, 138, 908, 974, 1065, 1122, 1440
Tru9I TTAA 7 cut(s) 62, 138, 908, 974, 1065, 1122, 1440
TscAI CASTG 2 cut(s) 1332, 1503
TseFI GTSAC 1 cut(s) 958
TseI GCWGC 4 cut(s) 1052, 1103, 1296, 1493
Tsp45I GTSAC 1 cut(s) 958
TspDTI ATGAA 6 cut(s) 376, 669, 860, 902, 1103, 1373
TspRI CASTG 2 cut(s) 1332, 1503
Van91I CCANNNNNTGG 1 cut(s) 432
VpaK11BI GGWCC 1 cut(s) 1249
XagI CCTNNNNNAGG 1 cut(s) 1168
XapI RAATTY 2 cut(s) 49, 1306
XceI RCATGY 1 cut(s) 1393
XspI CTAG 2 cut(s) 1193, 1649
ZrmI AGTACT 1 cut(s) 1130
Zsp2I ATGCAT 1 cut(s) 1605
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.