MD04G1230200.v1.1

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr04
OG0008347
Physical Location & Seq
Forward (+)
31033044 .. 31035936
2893 bp
Loading structure...
UTR
Exon/CDS
Intron
MD04G1230200.v1.1.491

Sequence Viewer

Length: 1758 bp
ATGGCATGTACGATTACCCAACAGAGTGGTGCTGTTGATGTTGGTTGTTTGTATGGGTGTGGAAAGCAAGTTAACCCCGGTTGTGGCATCAGCCATCTCTCAATATCAACAGTTTTAAGGAAGTATAATCGTGAAGCTCATTATTCTTTACAATGGAGAGGAGATGTTAGTTCCAAAAGAAATGCGGGTGTTTCACAGCGTAGGAGTTTTCAGCGAAGTGTTTGTATTGATAGAGTCCATGAAGTTCCCCTCGATGAATGGGGCTTTGATAGTGATGAGATGGGTTTTGAGAAAAAATCTGGAGAGGAAACGAATAACAAGAAGCCTCATAATGGTTTTGTATTGAATGTCGAAGGGCGCTTTGTGGGAAATGCTGAGGAGACCAATAATGATATTCTTCGGAACTTTTGCACCCGTGGGAAGTTAATTCATGCATCGAGATTGGTTGAGGTCATGGCACGTCAAAACCAAGTTCCGTACTTCCCTTCTTGCACAAACTTAATCCGAGGCCTTATCAAAACAGATCGATTAGATAAAGCTGAAAAAGTTCTAAAGATCATGATCATGTCTGGTGGGGTTCCAGATATTATCACATATAACATGATGGTTGGAGGTTTATGTAAGAGTGGACAGTTAAGCTCTGCAATCGATCTTGTGGAAGACATGAGCGTGAGTGGTTGCCCTCCAGATGTGATTACTTACAATACTATAATTCGTTGCATGTTTACATTTGGGAATTATGACCAGGCGATTGCGTTTTGGAAGGACCAACTGAGAAAGGGATGCCCTCCTTATATAGTCACCTACACAATTCTCATTGAGCTAGTCTGCAGACACTGTGGAACGATGCAAGCTGTGGAAGTTTTGGGTGATATGGTGGCAGAAGGATGTTATCCTGATATTGTTACCTTCAATTCTCTGATTAACTTCACTTCCAGACAGAATAAGCTTGAAGATACTGCTTTGGTTATACATAGTCTTCTATCTCTGGGGTTGAAGCCCAACACCATTACTTACAACACGATTCTCCATTCTCTTTGCAGCCGTGGGTGTTGGGAGGAAGCCGATGAAATCCTCACAATCATGAATGAAACTTCCGAACCCCCTACAGTTGTTACTTACAATATTTTGATCAATGGTTTGTGTAAATTTGGGATTGTAGATCGTGCCGTCAACTTCTTTACTCAAATGGTTTCTCAGAATTGTTATCCCGACATCATTACTTATAACACACTCCTGGGCGCTCTTTGTAGGACGGGAATGATTGATCAGGCCCTCGAATTACTTAATCTTCTAAGTGGCACCAGTCGATCGCCTGGTTTAATCACTTACAATACTGTGATTGACGGATTGGCTAAGACAGGTTGCATGGAGAAAGCTATGGGATTGTATGGTCAAATGGTAGAAAATGGAATCATTCCTGATGAAATTACTCATCGTTCTTTGGTAGGTGGGTTTTGCCGGGCGAATCTAGTTGAGGAAGCTGTTCTGATACTGAAGGAGATGCATAAGAGAGGCCATCCGGTCCGTAATATGTCTTACAAATTTGTGATCCATGGATTATGTAGAAAGAAGAGAGTTGATATTGCAATACAAGTCCTAGAAATGATGATGTCAAATCGAAGCATGCCAGATGAGGCAATTTATTCAACTATAATTGAAGGTGTAGCCGCTGCTGGTATGACAAAAGAGGCCGATGAGTTGCATCAAAAGCTGATCGAGTGGAAGGTTTTAAGTGAAGAGATCATGGTAAACTAG

Protein Analysis

586

Amino Acids

65.18

Weight (kDa)

6.15

Isoelectric Point (pI)

39.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 163 - 208 2.1e-09 PPR repeat family
PPR_1 PF12854 191 - 223 8.3e-10 PPR repeat
PPR_2 PF13041 194 - 241 9e-16 PPR repeat family
PPR PF01535 197 - 227 4.2e-06 PPR repeat
PPR_3 PF13812 218 - 276 6.6e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 226 - 254 1.5e-06 PPR repeat
PPR_2 PF13041 229 - 278 8.1e-12 PPR repeat family
PPR_3 PF13812 259 - 310 6.3e-07 Pentatricopeptide repeat domain
PPR_2 PF13041 265 - 309 9.6e-10 PPR repeat family
PPR_3 PF13812 325 - 379 8.4e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 331 - 360 5.8e-07 PPR repeat
PPR_2 PF13041 334 - 383 2.2e-15 PPR repeat family
PPR_1 PF12854 369 - 398 1.2e-11 PPR repeat
PPR_2 PF13041 369 - 418 4.1e-17 PPR repeat family
PPR PF01535 372 - 402 4.2e-06 PPR repeat
PPR_1 PF12854 401 - 430 2.8e-09 PPR repeat
PPR_2 PF13041 404 - 430 3.1e-06 PPR repeat family
TPR_24 PF23276 418 - 521 1.5e-06 Fungal tetratrico peptide repeats
PPR_2 PF13041 439 - 488 4.4e-14 PPR repeat family
PPR PF01535 442 - 472 8.3e-09 PPR repeat
PPR_long PF17177 456 - 567 7.8e-06 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 470 - 502 3.8e-08 PPR repeat
PPR_2 PF13041 513 - 557 5.9e-06 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 1 cut(s) 1227
AccB1I GGYRCC 1 cut(s) 1301
AciI CCGC 2 cut(s) 185, 1671
AclWI GGATC 1 cut(s) 1546
AcsI RAATTY 2 cut(s) 1148, 1544
AcuI CTGAAG 1 cut(s) 1517
AfaI GTAC 2 cut(s) 10, 479
AfiI CCNNNNNNNGG 2 cut(s) 83, 332
AgsI TTSAA 6 cut(s) 346, 913, 953, 997, 1650, 1661
AjiI CACGTC 1 cut(s) 461
AjnI CCWGG 3 cut(s) 744, 1236, 1315
AluBI AGCT 9 cut(s) 137, 539, 639, 823, 854, 949, 1379, 1484, 1714
AluI AGCT 9 cut(s) 137, 539, 639, 823, 854, 949, 1379, 1484, 1714
Alw26I GTCTC 1 cut(s) 374
AlwI GGATC 1 cut(s) 1546
AlwNI CAGNNNCTG 1 cut(s) 837
AoxI GGCC 4 cut(s) 508, 1272, 1516, 1692
ApeKI GCWGC 2 cut(s) 1041, 1673
ApoI RAATTY 2 cut(s) 1148, 1544
Asp700I GAANNNNTTC 2 cut(s) 546, 1485
AspLEI GCGC 2 cut(s) 360, 1244
AspS9I GGNCC 3 cut(s) 766, 1273, 1525
AsuC2I CCSGG 2 cut(s) 78, 1463
AsuHPI GGTGA 2 cut(s) 793, 881
AvaII GGWCC 2 cut(s) 766, 1525
BanI GGYRCC 1 cut(s) 1301
BbsI GAAGAC 2 cut(s) 666, 971
BbvCI CCTCAGC 1 cut(s) 375
BbvI GCAGC 2 cut(s) 1053, 1660
BccI CCATC 4 cut(s) 102, 274, 598, 1527
BceAI ACGGC 2 cut(s) 1029, 1154
BciT130I CCWGG 3 cut(s) 746, 1238, 1317
BclI TGATCA 3 cut(s) 561, 1131, 1267
BcnI CCSGG 2 cut(s) 78, 1463
BcoDI GTCTC 1 cut(s) 374
BfaI CTAG 4 cut(s) 824, 1472, 1601, 1756
BfmI CTRYAG 2 cut(s) 829, 1107
BfoI RGCGCY 2 cut(s) 361, 1245
BisI GCNGC 3 cut(s) 1042, 1671, 1674
BlsI GCNGC 3 cut(s) 1043, 1672, 1675
Bme1390I CCNGG 5 cut(s) 78, 746, 1238, 1317, 1463
Bme18I GGWCC 2 cut(s) 766, 1525
BmgBI CACGTC 1 cut(s) 461
BmgT120I GGNCC 3 cut(s) 766, 1273, 1525
BmiI GGNNCC 2 cut(s) 579, 1303
BmrFI CCNGG 5 cut(s) 78, 746, 1238, 1317, 1463
BmsI GCATC 6 cut(s) 96, 443, 773, 837, 1494, 1714
BpiI GAAGAC 2 cut(s) 666, 971
BpmI CTGGAG 2 cut(s) 321, 669
Bpu10I CCTNAGC 1 cut(s) 375
BpuMI CCSGG 2 cut(s) 78, 1463
Bsa29I ATCGAT 2 cut(s) 526, 648
BsaBI GATNNNNATC 1 cut(s) 560
BsaI GGTCTC 1 cut(s) 374
BsaJI CCNNGG 6 cut(s) 76, 415, 505, 1045, 1237, 1555
BsaWI WCCGGW 1 cut(s) 1522
Bsc4I CCNNNNNNNGG 2 cut(s) 83, 332
Bse1I ACTGG 1 cut(s) 1305
Bse8I GATNNNNATC 1 cut(s) 560
BseBI CCWGG 3 cut(s) 746, 1238, 1317
BseCI ATCGAT 2 cut(s) 526, 648
BseDI CCNNGG 6 cut(s) 76, 415, 505, 1045, 1237, 1555
BseGI GGATG 3 cut(s) 788, 893, 1519
BseJI GATNNNNATC 1 cut(s) 560
BseLI CCNNNNNNNGG 2 cut(s) 83, 332
BseMII CTCAG 3 cut(s) 366, 764, 1211
BseNI ACTGG 1 cut(s) 1305
BseRI GAGGAG 2 cut(s) 174, 392
BseXI GCAGC 2 cut(s) 1053, 1660
Bsh1285I CGRYCG 1 cut(s) 1313
BshFI GGCC 4 cut(s) 510, 1274, 1518, 1694
BshNI GGYRCC 1 cut(s) 1301
BshVI ATCGAT 2 cut(s) 526, 648
BsiEI CGRYCG 1 cut(s) 1313
BsiSI CCGG 3 cut(s) 78, 1462, 1523
BslI CCNNNNNNNGG 2 cut(s) 83, 332
BsmAI GTCTC 1 cut(s) 374
BsnI GGCC 4 cut(s) 510, 1274, 1518, 1694
Bso31I GGTCTC 1 cut(s) 374
Bsp19I CCATGG 1 cut(s) 1555
BspACI CCGC 2 cut(s) 185, 1671
BspANI GGCC 4 cut(s) 510, 1274, 1518, 1694
BspCNI CTCAG 3 cut(s) 367, 765, 1210
BspDI ATCGAT 2 cut(s) 526, 648
BspHI TCATGA 2 cut(s) 558, 1083
BspLI GGNNCC 2 cut(s) 579, 1303
BspMAI CTGCAG 1 cut(s) 833
BspPI GGATC 1 cut(s) 1546
BspT107I GGYRCC 1 cut(s) 1301
BspTNI GGTCTC 1 cut(s) 374
BsrI ACTGG 1 cut(s) 1305
BssECI CCNNGG 6 cut(s) 76, 415, 505, 1045, 1237, 1555
BssT1I CCWWGG 1 cut(s) 1555
Bst2UI CCWGG 3 cut(s) 746, 1238, 1317
Bst4CI ACNGT 5 cut(s) 112, 633, 839, 1111, 1339
Bst6I CTCTTC 2 cut(s) 1568, 1734
BstC8I GCNNGC 2 cut(s) 852, 1628
BstDEI CTNAG 5 cut(s) 375, 773, 1197, 1295, 1356
BstDSI CCRYGG 3 cut(s) 415, 1045, 1555
BstF5I GGATG 3 cut(s) 788, 893, 1519
BstH2I RGCGCY 2 cut(s) 361, 1245
BstHHI GCGC 2 cut(s) 360, 1244
BstMAI GTCTC 1 cut(s) 374
BstMCI CGRYCG 1 cut(s) 1313
BstMWI GCNNNNNNNGC 1 cut(s) 1711
BstNI CCWGG 3 cut(s) 746, 1238, 1317
BstNSI RCATGY 3 cut(s) 9, 724, 1630
BstSCI CCNGG 5 cut(s) 76, 744, 1236, 1315, 1461
BstSFI CTRYAG 2 cut(s) 829, 1107
BstV1I GCAGC 2 cut(s) 1053, 1660
BstV2I GAAGAC 2 cut(s) 666, 971
BstXI CCANNNNNNTGG 1 cut(s) 26
Bsu15I ATCGAT 2 cut(s) 526, 648
BsuRI GGCC 4 cut(s) 510, 1274, 1518, 1694
BsuTUI ATCGAT 2 cut(s) 526, 648
BtgI CCRYGG 3 cut(s) 415, 1045, 1555
BtrI CACGTC 1 cut(s) 461
BtsCI GGATG 3 cut(s) 788, 893, 1519
BtsIMutI CAGTG 1 cut(s) 835
Cac8I GCNNGC 2 cut(s) 852, 1628
CaiI CAGNNNCTG 1 cut(s) 837
CciI TCATGA 2 cut(s) 558, 1083
CfoI GCGC 2 cut(s) 360, 1244
Cfr13I GGNCC 3 cut(s) 766, 1273, 1525
ClaI ATCGAT 2 cut(s) 526, 648
CpoI CGGWCCG 1 cut(s) 1525
Csp6I GTAC 2 cut(s) 9, 478
CspI CGGWCCG 1 cut(s) 1525
CviQI GTAC 2 cut(s) 9, 478
DdeI CTNAG 5 cut(s) 375, 773, 1197, 1295, 1356
Eam1104I CTCTTC 2 cut(s) 1568, 1734
EarI CTCTTC 2 cut(s) 1568, 1734
Eco130I CCWWGG 1 cut(s) 1555
Eco147I AGGCCT 1 cut(s) 510
Eco31I GGTCTC 1 cut(s) 374
Eco47I GGWCC 2 cut(s) 766, 1525
Eco57I CTGAAG 1 cut(s) 1517
EcoO109I RGGNCCY 1 cut(s) 1273
EcoRII CCWGG 3 cut(s) 744, 1236, 1315
EcoT14I CCWWGG 1 cut(s) 1555
EcoT22I ATGCAT 2 cut(s) 436, 1509
ErhI CCWWGG 1 cut(s) 1555
FauI CCCGC 1 cut(s) 178
FbaI TGATCA 3 cut(s) 561, 1131, 1267
Fnu4HI GCNGC 3 cut(s) 1042, 1671, 1674
FokI GGATG 3 cut(s) 795, 900, 1506
Fsp4HI GCNGC 3 cut(s) 1042, 1671, 1674
FspBI CTAG 4 cut(s) 824, 1472, 1601, 1756
GlaI GCGC 2 cut(s) 359, 1243
GluI GCNGC 3 cut(s) 1042, 1671, 1674
GsuI CTGGAG 2 cut(s) 321, 669
HaeII RGCGCY 2 cut(s) 361, 1245
HaeIII GGCC 4 cut(s) 510, 1274, 1518, 1694
HapII CCGG 3 cut(s) 78, 1462, 1523
HhaI GCGC 2 cut(s) 360, 1244
Hin6I GCGC 2 cut(s) 358, 1242
HinP1I GCGC 2 cut(s) 358, 1242
HincII GTYRAC 2 cut(s) 73, 1174
HindII GTYRAC 2 cut(s) 73, 1174
HindIII AAGCTT 1 cut(s) 947
HinfI GANTC 4 cut(s) 234, 1024, 1413, 1468
HpaI GTTAAC 1 cut(s) 73
HpaII CCGG 3 cut(s) 78, 1462, 1523
HphI GGTGA 2 cut(s) 793, 881
Hpy166II GTNNAC 5 cut(s) 73, 629, 726, 1174, 1753
Hpy188I TCNGA 6 cut(s) 402, 506, 921, 1099, 1200, 1491
Hpy8I GTNNAC 5 cut(s) 73, 629, 726, 1174, 1753
HpyAV CCTTC 8 cut(s) 347, 495, 757, 878, 919, 1492, 1655, 1720
HpyCH4III ACNGT 5 cut(s) 112, 633, 839, 1111, 1339
HpyCH4IV ACGT 1 cut(s) 460
HpyF10VI GCNNNNNNNGC 1 cut(s) 1711
HpyF3I CTNAG 5 cut(s) 375, 773, 1197, 1295, 1356
HpySE526I ACGT 1 cut(s) 460
HspAI GCGC 2 cut(s) 358, 1242
Ksp22I TGATCA 3 cut(s) 561, 1131, 1267
KspAI GTTAAC 1 cut(s) 73
Lsp1109I GCAGC 2 cut(s) 1053, 1660
LweI GCATC 6 cut(s) 96, 443, 773, 837, 1494, 1714
MaeI CTAG 4 cut(s) 824, 1472, 1601, 1756
MaeII ACGT 1 cut(s) 460
MaeIII GTNAC 3 cut(s) 799, 904, 1114
MboII GAAGA 7 cut(s) 389, 671, 965, 971, 1283, 1585, 1751
MlyI GAGTC 1 cut(s) 243
MmeI TCCRAC 1 cut(s) 589
Mph1103I ATGCAT 2 cut(s) 436, 1509
MroXI GAANNNNTTC 2 cut(s) 546, 1485
MseI TTAA 9 cut(s) 72, 116, 425, 500, 635, 924, 1287, 1322, 1733
MslI CAYNNNNRTG 3 cut(s) 563, 668, 1082
MspA1I CMGCKG 1 cut(s) 1673
MspI CCGG 3 cut(s) 78, 1462, 1523
MspR9I CCNGG 5 cut(s) 78, 746, 1238, 1317, 1463
MvaI CCWGG 3 cut(s) 746, 1238, 1317
MwoI GCNNNNNNNGC 1 cut(s) 1711
NciI CCSGG 2 cut(s) 78, 1463
NcoI CCATGG 1 cut(s) 1555
NlaIV GGNNCC 2 cut(s) 579, 1303
NmuCI GTSAC 1 cut(s) 799
NsiI ATGCAT 2 cut(s) 436, 1509
NspI RCATGY 3 cut(s) 9, 724, 1630
PaeI GCATGC 1 cut(s) 1630
PagI TCATGA 2 cut(s) 558, 1083
PceI AGGCCT 1 cut(s) 510
PdmI GAANNNNTTC 2 cut(s) 546, 1485
PfeI GAWTC 3 cut(s) 1024, 1413, 1468
PkrI GCNGC 3 cut(s) 1043, 1672, 1675
Ple19I CGATCG 1 cut(s) 1313
PleI GAGTC 1 cut(s) 242
PpsI GAGTC 1 cut(s) 242
PsiI TTATAA 1 cut(s) 1227
Psp6I CCWGG 3 cut(s) 744, 1236, 1315
PspGI CCWGG 3 cut(s) 744, 1236, 1315
PspN4I GGNNCC 2 cut(s) 579, 1303
PspPI GGNCC 3 cut(s) 766, 1273, 1525
PstI CTGCAG 1 cut(s) 833
PstNI CAGNNNCTG 1 cut(s) 837
PvuI CGATCG 1 cut(s) 1313
RsaI GTAC 2 cut(s) 10, 479
RsaNI GTAC 2 cut(s) 9, 478
RseI CAYNNNNRTG 3 cut(s) 563, 668, 1082
Rsr2I CGGWCCG 1 cut(s) 1525
RsrII CGGWCCG 1 cut(s) 1525
SaqAI TTAA 9 cut(s) 72, 116, 425, 500, 635, 924, 1287, 1322, 1733
SatI GCNGC 3 cut(s) 1042, 1671, 1674
Sau96I GGNCC 3 cut(s) 766, 1273, 1525
SchI GAGTC 1 cut(s) 243
ScrFI CCNGG 5 cut(s) 78, 746, 1238, 1317, 1463
SfaNI GCATC 6 cut(s) 96, 443, 773, 837, 1494, 1714
SfcI CTRYAG 2 cut(s) 829, 1107
SinI GGWCC 2 cut(s) 766, 1525
SmiMI CAYNNNNRTG 3 cut(s) 563, 668, 1082
SphI GCATGC 1 cut(s) 1630
SseBI AGGCCT 1 cut(s) 510
SsiI CCGC 2 cut(s) 185, 1671
SspI AATATT 1 cut(s) 1126
SspMI CTAG 4 cut(s) 824, 1472, 1601, 1756
StuI AGGCCT 1 cut(s) 510
StyD4I CCNGG 5 cut(s) 76, 744, 1236, 1315, 1461
StyI CCWWGG 1 cut(s) 1555
TaaI ACNGT 5 cut(s) 112, 633, 839, 1111, 1339
TaiI ACGT 1 cut(s) 463
TaqI TCGA 9 cut(s) 252, 351, 437, 526, 648, 1278, 1309, 1621, 1719
TauI GCSGC 1 cut(s) 1673
TfiI GAWTC 3 cut(s) 1024, 1413, 1468
Tru1I TTAA 9 cut(s) 72, 116, 425, 500, 635, 924, 1287, 1322, 1733
Tru9I TTAA 9 cut(s) 72, 116, 425, 500, 635, 924, 1287, 1322, 1733
TscAI CASTG 1 cut(s) 842
TseFI GTSAC 1 cut(s) 799
TseI GCWGC 2 cut(s) 1041, 1673
Tsp45I GTSAC 1 cut(s) 799
TspDTI ATGAA 7 cut(s) 255, 270, 419, 1083, 1100, 1104, 1440
TspGWI ACGGA 3 cut(s) 465, 1362, 1517
TspRI CASTG 1 cut(s) 842
VpaK11BI GGWCC 2 cut(s) 766, 1525
XapI RAATTY 2 cut(s) 1148, 1544
XceI RCATGY 3 cut(s) 9, 724, 1630
XmnI GAANNNNTTC 2 cut(s) 546, 1485
XspI CTAG 4 cut(s) 824, 1472, 1601, 1756
Zsp2I ATGCAT 2 cut(s) 436, 1509
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.