MD09G1103700.v1.1

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr09
OG0005195
Physical Location & Seq
Forward (+)
7583498 .. 7585342
1845 bp
Loading structure...
UTR
Exon/CDS
Intron
MD09G1103700.v1.1.491

Sequence Viewer

Length: 1773 bp
ATGAACGGCAATGGCAATCTCAATCTCAAACTCCTCAAAAAATCTATCTGCTCCTCCACTCTCCATCTCAAACATCAATCTCTCAGCCCACCATTCACTTCCCTCCAATGCGGAACCATCTTCCAATCCCTCACCAAAACCAAATCCTTCCCAAAAGGCCAGCAGCTCCACGCCGTCGCTGTCACCGCCGGAAATCTCATCAACAACACCTATCTCAGCACCAAGCTCGCCGCTTTCTACGCAAACTGTGGTAAAATGCCCCAAGCGCAGCTGATTTTTGATGGAATTTTACTGAAAAACTCGTTCCTGTGGAATTTCATGATCAGGGGATATGCCTGCAATGGATGTCCGATCAAGTCTCTGGTTTTGTACCGTGAAATGCTTAGTTTTGGACAGAAGGCGGACAATTTTACCTACCCTTTTGTTCTTAAGGCGTGCGGTGATCTGTTGGTTGTGGAAATTGGGAGGACGGTTCATGGGGAGGTTGTGGTTAGTGGGCTGGAGTCGGATGTTTATGTGGGTAATGCTCTTCTGGCAATGTACTCCAAGTTCGGGGATATGAGGTTGGCAGGGATGGTGTTTGATAGAATGCCTGAGAGAGATTTAACTTCTTGGAACACAATGATTTCGGGTTGTGTGAAGAATGGTGACCCAAGAGAGGGTTTAATGATTTTTGAGGAAATGGGGAAGGCGGGATTGAGAGCAGATGGGACAAGTTTGCTTGGGATACTCTCTGGTTGTGCTGAGTTGATGGCCTTGAAGGAGGGGAAAGCAGTTCATGCATATGTGGTTCGAAACAGTGGTGAAATACATAACGAGTTTTTGACCAATTCTCTTATTGAGATGTATTGTAAGTGCAAGTCTGCGGCTTATTCGAGGCGATTATTTGATGGGGTGAAATTGAAAGATACTGTGTCATGGAACTCTATGATCAGTGGTTATGAGCAGAATGGAGATGCTTTTGAAAGCTTGAGACTTTTCTGCCAAATGGTTATGGAAGGTGCAGAGGTTGATGAAGTAACTGTCACAAGTGTGCTCGGAGCTTGTGACCAGATCAGCGCCTTGCAATTTGGCATGTCTGTTCATTCATGCATCGTCAAGAAAGGGTTTGGTGGAAATATCTTTGTGGGAACTGCCCTTATAGACATGTATTCTAAATGTGGAAGTTTGTCTTGTTCCCGTTGTGTTTTTGATGAGATGCCTGTAAAAAACTTGGTTTCTTGGAGTGCTATGGTTTCAGGATATGGTGCTCATGGGAGGGGAGAAGAAGCAATCTCTTGTTATCACGAACTGGTAGCAAATAATTTCACTCCAGATGAAGGGGTTCTCACTTCTGTTTTGTCAGCATGTAGCCATGCCGGCCTAGTCAATGAAGGTAAAGATATTTTTAATAGAATGACGGTAGAATACAATGTGAAGCCTGGACTTGCTCACTATTCATGTTTGGTGGATCTTCTGGGAAGAGCAGGGCGCATAGATGAAGCATATGAGCTCATTAAGAGCATGCAAGTAGAACCTAGCAGTGATATATGGGCTGCACTTCTTTCTGCTTGCAGGTTACACAAGAATGTTAAGCTGGCGGAGATTGCAGCACAAAATGTTTTTGAAATGAACCCAAAAGGAGTGGGGAGCTACATTTGCCTTTCCAACATTTATGCTTCTGAGAAGAGATGGGATGACGTGGAAAGAGTGAGAGCTGTGGTGAGAAGGAAGGGACTGAAGAAACCACCCGGCTGCAGCTTTGTGGAACACGAGATATTTATGCCAAGTTAA
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
DYW_deaminase PPR PPR_2

Protein Analysis

591

Amino Acids

64.68

Weight (kDa)

7.73

Isoelectric Point (pI)

33.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 100 - 146 7.3e-06 PPR repeat family
PPR_2 PF13041 201 - 248 6.1e-08 PPR repeat family
PPR PF01535 204 - 233 4.8e-09 PPR repeat
PPR_2 PF13041 302 - 349 6.8e-09 PPR repeat family
PPR PF01535 305 - 334 3.8e-07 PPR repeat
PPR_2 PF13041 404 - 451 5.4e-06 PPR repeat family
PPR_long PF17177 423 - 518 1e-05 Pentacotripeptide-repeat region of PRORP
E_motif PF20431 521 - 583 2.9e-20 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 1545
AciI CCGC 8 cut(s) 111, 186, 231, 401, 438, 692, 866, 1580
AclWI GGATC 1 cut(s) 1458
AcsI RAATTY 2 cut(s) 285, 313
AcuI CTGAAG 1 cut(s) 1739
AfaI GTAC 2 cut(s) 371, 542
AfiI CCNNNNNNNGG 4 cut(s) 552, 658, 659, 1319
AflII CTTAAG 1 cut(s) 428
AflIII ACRYGT 1 cut(s) 1146
AgsI TTSAA 4 cut(s) 760, 904, 965, 1607
AjiI CACGTC 1 cut(s) 1681
AjnI CCWGG 1 cut(s) 1420
AleI CACNNNNGTG 1 cut(s) 1031
Alw21I GWGCWC 3 cut(s) 1038, 1252, 1494
Alw26I GTCTC 2 cut(s) 363, 967
AlwI GGATC 1 cut(s) 1458
AoxI GGCC 3 cut(s) 157, 753, 1360
ApeKI GCWGC 6 cut(s) 163, 268, 1535, 1589, 1734, 1737
ApoI RAATTY 2 cut(s) 285, 313
Asp700I GAANNNNTTC 1 cut(s) 1323
AspLEI GCGC 3 cut(s) 268, 1061, 1473
AsuC2I CCSGG 1 cut(s) 1731
AsuHPI GGTGA 7 cut(s) 124, 175, 452, 659, 815, 907, 1714
AsuII TTCGAA 1 cut(s) 793
BanII GRGCYC 1 cut(s) 1494
BauI CACGAG 1 cut(s) 1751
Bbv12I GWGCWC 3 cut(s) 1038, 1252, 1494
BbvI GCAGC 6 cut(s) 175, 280, 1522, 1601, 1721, 1749
BccI CCATC 8 cut(s) 72, 125, 275, 568, 701, 745, 884, 1665
BceAI ACGGC 2 cut(s) 22, 158
BcgI CGANNNNNNTGC 2 cut(s) 208, 242
BciT130I CCWGG 1 cut(s) 1422
BciVI GTATCC 1 cut(s) 720
BclI TGATCA 2 cut(s) 321, 930
BcnI CCSGG 1 cut(s) 1731
BcoDI GTCTC 2 cut(s) 363, 967
BfaI CTAG 2 cut(s) 1364, 1518
BfmI CTRYAG 1 cut(s) 1735
BfoI RGCGCY 1 cut(s) 1062
BfrI CTTAAG 1 cut(s) 428
BfuAI ACCTGC 1 cut(s) 1545
BfuI GTATCC 1 cut(s) 720
BglI GCCNNNNNGGC 1 cut(s) 1359
BisI GCNGC 8 cut(s) 164, 231, 269, 867, 1536, 1590, 1735, 1738
BlsI GCNGC 8 cut(s) 165, 232, 270, 868, 1537, 1591, 1736, 1739
Bme1390I CCNGG 2 cut(s) 1422, 1731
BmgBI CACGTC 1 cut(s) 1681
BmiI GGNNCC 1 cut(s) 115
BmrFI CCNGG 2 cut(s) 1422, 1731
BmsI GCATC 3 cut(s) 946, 1101, 1188
BpmI CTGGAG 2 cut(s) 521, 1296
Bpu14I TTCGAA 1 cut(s) 793
BpuEI CTTGAG 1 cut(s) 991
BpuMI CCSGG 1 cut(s) 1731
Bsc4I CCNNNNNNNGG 4 cut(s) 552, 658, 659, 1319
Bse118I RCCGGY 1 cut(s) 1358
Bse1I ACTGG 1 cut(s) 1296
Bse3DI GCAATG 3 cut(s) 16, 346, 543
BseBI CCWGG 1 cut(s) 1422
BseGI GGATG 4 cut(s) 350, 514, 579, 1681
BseLI CCNNNNNNNGG 4 cut(s) 552, 658, 659, 1319
BseMI GCAATG 3 cut(s) 16, 346, 543
BseMII CTCAG 5 cut(s) 97, 229, 585, 735, 1653
BseNI ACTGG 1 cut(s) 1296
BseRI GAGGAG 2 cut(s) 23, 43
BseXI GCAGC 6 cut(s) 175, 280, 1522, 1601, 1721, 1749
BsgI GTGCAG 2 cut(s) 1023, 1521
BshFI GGCC 3 cut(s) 159, 755, 1362
BsiHKAI GWGCWC 3 cut(s) 1038, 1252, 1494
BsiSI CCGG 3 cut(s) 189, 1359, 1731
BslFI GGGAC 2 cut(s) 724, 1728
BslI CCNNNNNNNGG 4 cut(s) 552, 658, 659, 1319
BsmAI GTCTC 2 cut(s) 363, 967
BsmFI GGGAC 2 cut(s) 724, 1728
BsmI GAATGC 1 cut(s) 594
BsnI GGCC 3 cut(s) 159, 755, 1362
Bsp119I TTCGAA 1 cut(s) 793
Bsp1286I GDGCHC 3 cut(s) 1038, 1252, 1494
Bsp143I GATC 6 cut(s) 321, 351, 442, 930, 1053, 1450
BspACI CCGC 8 cut(s) 111, 186, 231, 401, 438, 692, 866, 1580
BspANI GGCC 3 cut(s) 159, 755, 1362
BspCNI CTCAG 5 cut(s) 96, 228, 586, 736, 1654
BspHI TCATGA 1 cut(s) 318
BspLI GGNNCC 1 cut(s) 115
BspMAI CTGCAG 1 cut(s) 1739
BspMI ACCTGC 1 cut(s) 1545
BspPI GGATC 1 cut(s) 1458
BspQI GCTCTTC 2 cut(s) 534, 1456
BspT104I TTCGAA 1 cut(s) 793
BspTI CTTAAG 1 cut(s) 428
BsrDI GCAATG 3 cut(s) 16, 346, 543
BsrFI RCCGGY 1 cut(s) 1358
BsrI ACTGG 1 cut(s) 1296
BssAI RCCGGY 1 cut(s) 1358
BssMI GATC 6 cut(s) 321, 351, 442, 930, 1053, 1450
BssSI CACGAG 1 cut(s) 1751
Bst2BI CACGAG 1 cut(s) 1751
Bst2UI CCWGG 1 cut(s) 1422
Bst4CI ACNGT 7 cut(s) 248, 374, 472, 800, 913, 1024, 1402
Bst6I CTCTTC 3 cut(s) 534, 1456, 1661
BstAFI CTTAAG 1 cut(s) 428
BstAPI GCANNNNNTGC 1 cut(s) 779
BstBI TTCGAA 1 cut(s) 793
BstC8I GCNNGC 8 cut(s) 161, 228, 337, 436, 1360, 1505, 1552, 1578
BstDEI CTNAG 6 cut(s) 83, 215, 383, 594, 744, 1662
BstEII GGTNACC 1 cut(s) 647
BstF5I GGATG 4 cut(s) 350, 514, 579, 1681
BstH2I RGCGCY 1 cut(s) 1062
BstHHI GCGC 3 cut(s) 268, 1061, 1473
BstKTI GATC 6 cut(s) 324, 354, 445, 933, 1056, 1453
BstMAI GTCTC 2 cut(s) 363, 967
BstMBI GATC 6 cut(s) 321, 351, 442, 930, 1053, 1450
BstMWI GCNNNNNNNGC 8 cut(s) 185, 239, 265, 533, 779, 1359, 1586, 1638
BstNI CCWGG 1 cut(s) 1422
BstNSI RCATGY 4 cut(s) 1078, 1150, 1350, 1507
BstPI GGTNACC 1 cut(s) 647
BstSCI CCNGG 2 cut(s) 1420, 1729
BstSFI CTRYAG 1 cut(s) 1735
BstV1I GCAGC 6 cut(s) 175, 280, 1522, 1601, 1721, 1749
BstX2I RGATCY 1 cut(s) 1450
BstYI RGATCY 1 cut(s) 1450
BsuI GTATCC 1 cut(s) 720
BsuRI GGCC 3 cut(s) 159, 755, 1362
BtrI CACGTC 1 cut(s) 1681
BtsCI GGATG 4 cut(s) 350, 514, 579, 1681
BtsI GCAGTG 1 cut(s) 1528
BtsIMutI CAGTG 3 cut(s) 805, 940, 1528
BveI ACCTGC 1 cut(s) 1545
Cac8I GCNNGC 8 cut(s) 161, 228, 337, 436, 1360, 1505, 1552, 1578
CciI TCATGA 1 cut(s) 318
CfoI GCGC 3 cut(s) 268, 1061, 1473
Cfr10I RCCGGY 1 cut(s) 1358
Csp6I GTAC 2 cut(s) 370, 541
CspCI CAANNNNNGTGG 2 cut(s) 1605, 1640
CviQI GTAC 2 cut(s) 370, 541
DdeI CTNAG 6 cut(s) 83, 215, 383, 594, 744, 1662
DpnI GATC 6 cut(s) 323, 353, 444, 932, 1055, 1452
DpnII GATC 6 cut(s) 321, 351, 442, 930, 1053, 1450
Eam1104I CTCTTC 3 cut(s) 534, 1456, 1661
EarI CTCTTC 3 cut(s) 534, 1456, 1661
EciI GGCGGA 2 cut(s) 416, 1595
Ecl136II GAGCTC 1 cut(s) 1492
Eco24I GRGCYC 1 cut(s) 1494
Eco53kI GAGCTC 1 cut(s) 1492
Eco57I CTGAAG 1 cut(s) 1739
Eco91I GGTNACC 1 cut(s) 647
EcoICRI GAGCTC 1 cut(s) 1492
EcoO65I GGTNACC 1 cut(s) 647
EcoRII CCWGG 1 cut(s) 1420
EcoT22I ATGCAT 2 cut(s) 784, 1094
EcoT38I GRGCYC 1 cut(s) 1494
FalI AAGNNNNNCTT 2 cut(s) 1156, 1188
FaqI GGGAC 2 cut(s) 724, 1728
FauI CCCGC 1 cut(s) 685
FauNDI CATATG 2 cut(s) 784, 1486
FbaI TGATCA 2 cut(s) 321, 930
Fnu4HI GCNGC 8 cut(s) 164, 231, 269, 867, 1536, 1590, 1735, 1738
FokI GGATG 4 cut(s) 357, 521, 586, 1688
FriOI GRGCYC 1 cut(s) 1494
Fsp4HI GCNGC 8 cut(s) 164, 231, 269, 867, 1536, 1590, 1735, 1738
FspBI CTAG 2 cut(s) 1364, 1518
GlaI GCGC 3 cut(s) 267, 1060, 1472
GluI GCNGC 8 cut(s) 164, 231, 269, 867, 1536, 1590, 1735, 1738
GsuI CTGGAG 2 cut(s) 521, 1296
HaeII RGCGCY 1 cut(s) 1062
HaeIII GGCC 3 cut(s) 159, 755, 1362
HapII CCGG 3 cut(s) 189, 1359, 1731
HhaI GCGC 3 cut(s) 268, 1061, 1473
Hin6I GCGC 3 cut(s) 266, 1059, 1471
HinP1I GCGC 3 cut(s) 266, 1059, 1471
HindIII AAGCTT 1 cut(s) 967
HinfI GANTC 1 cut(s) 503
HpaII CCGG 3 cut(s) 189, 1359, 1731
HphI GGTGA 7 cut(s) 124, 175, 452, 659, 815, 907, 1714
Hpy188I TCNGA 4 cut(s) 351, 508, 1040, 1663
Hpy188III TCNNGA 5 cut(s) 319, 1099, 1239, 1286, 1313
Hpy99I CGWCG 1 cut(s) 179
HpyAV CCTTC 9 cut(s) 157, 391, 682, 754, 992, 1313, 1367, 1701, 1705
HpyCH4III ACNGT 7 cut(s) 248, 374, 472, 800, 913, 1024, 1402
HpyCH4IV ACGT 1 cut(s) 1680
HpyF10VI GCNNNNNNNGC 8 cut(s) 185, 239, 265, 533, 779, 1359, 1586, 1638
HpyF3I CTNAG 6 cut(s) 83, 215, 383, 594, 744, 1662
HpySE526I ACGT 1 cut(s) 1680
HspAI GCGC 3 cut(s) 266, 1059, 1471
KroI GCCGGC 1 cut(s) 1358
KroNI GCCGGC 1 cut(s) 1360
Ksp22I TGATCA 2 cut(s) 321, 930
Kzo9I GATC 6 cut(s) 321, 351, 442, 930, 1053, 1450
LguI GCTCTTC 2 cut(s) 534, 1456
LmnI GCTCC 4 cut(s) 56, 171, 1040, 1629
Lsp1109I GCAGC 6 cut(s) 175, 280, 1522, 1601, 1721, 1749
LweI GCATC 3 cut(s) 946, 1101, 1188
MaeI CTAG 2 cut(s) 1364, 1518
MaeII ACGT 1 cut(s) 1680
MaeIII GTNAC 6 cut(s) 181, 647, 1018, 1024, 1046, 1557
MalI GATC 6 cut(s) 323, 353, 444, 932, 1055, 1452
MboI GATC 6 cut(s) 321, 351, 442, 930, 1053, 1450
MboII GAAGA 8 cut(s) 112, 521, 652, 1277, 1445, 1473, 1678, 1732
MflI RGATCY 1 cut(s) 1450
MhlI GDGCHC 3 cut(s) 1038, 1252, 1494
MluCI AATT 8 cut(s) 285, 313, 406, 459, 829, 899, 1067, 1303
MlyI GAGTC 1 cut(s) 512
MmeI TCCRAC 2 cut(s) 486, 1671
Mph1103I ATGCAT 2 cut(s) 784, 1094
MroNI GCCGGC 1 cut(s) 1358
MroXI GAANNNNTTC 1 cut(s) 1323
MseI TTAA 7 cut(s) 429, 605, 665, 1389, 1497, 1572, 1771
MslI CAYNNNNRTG 3 cut(s) 783, 1031, 1566
MspA1I CMGCKG 1 cut(s) 271
MspCI CTTAAG 1 cut(s) 428
MspI CCGG 3 cut(s) 189, 1359, 1731
MspR9I CCNGG 2 cut(s) 1422, 1731
Mva1269I GAATGC 1 cut(s) 594
MvaI CCWGG 1 cut(s) 1422
MwoI GCNNNNNNNGC 8 cut(s) 185, 239, 265, 533, 779, 1359, 1586, 1638
NaeI GCCGGC 1 cut(s) 1360
NciI CCSGG 1 cut(s) 1731
NdeI CATATG 2 cut(s) 784, 1486
NdeII GATC 6 cut(s) 321, 351, 442, 930, 1053, 1450
NgoMIV GCCGGC 1 cut(s) 1358
NlaIV GGNNCC 1 cut(s) 115
NmuCI GTSAC 4 cut(s) 181, 647, 1024, 1046
NsiI ATGCAT 2 cut(s) 784, 1094
NspI RCATGY 4 cut(s) 1078, 1150, 1350, 1507
NspV TTCGAA 1 cut(s) 793
OliI CACNNNNGTG 1 cut(s) 1031
PaeI GCATGC 1 cut(s) 1507
PagI TCATGA 1 cut(s) 318
PciI ACATGT 1 cut(s) 1146
PciSI GCTCTTC 2 cut(s) 534, 1456
PctI GAATGC 1 cut(s) 594
PdiI GCCGGC 1 cut(s) 1360
PdmI GAANNNNTTC 1 cut(s) 1323
PkrI GCNGC 8 cut(s) 165, 232, 270, 868, 1537, 1591, 1736, 1739
PleI GAGTC 1 cut(s) 511
PpsI GAGTC 1 cut(s) 511
PscI ACATGT 1 cut(s) 1146
Psp124BI GAGCTC 1 cut(s) 1494
Psp6I CCWGG 1 cut(s) 1420
PspEI GGTNACC 1 cut(s) 647
PspGI CCWGG 1 cut(s) 1420
PspN4I GGNNCC 1 cut(s) 115
PsrI GAACNNNNNNTAC 2 cut(s) 533, 565
PstI CTGCAG 1 cut(s) 1739
PsuI RGATCY 1 cut(s) 1450
PvuII CAGCTG 1 cut(s) 271
RsaI GTAC 2 cut(s) 371, 542
RsaNI GTAC 2 cut(s) 370, 541
RseI CAYNNNNRTG 3 cut(s) 783, 1031, 1566
SacI GAGCTC 1 cut(s) 1494
SapI GCTCTTC 2 cut(s) 534, 1456
SaqAI TTAA 7 cut(s) 429, 605, 665, 1389, 1497, 1572, 1771
SatI GCNGC 8 cut(s) 164, 231, 269, 867, 1536, 1590, 1735, 1738
Sau3AI GATC 6 cut(s) 321, 351, 442, 930, 1053, 1450
SchI GAGTC 1 cut(s) 512
ScrFI CCNGG 2 cut(s) 1422, 1731
SduI GDGCHC 3 cut(s) 1038, 1252, 1494
SfaNI GCATC 3 cut(s) 946, 1101, 1188
SfcI CTRYAG 1 cut(s) 1735
SfuI TTCGAA 1 cut(s) 793
SmiMI CAYNNNNRTG 3 cut(s) 783, 1031, 1566
SmlI CTYRAG 2 cut(s) 428, 970
SmoI CTYRAG 2 cut(s) 428, 970
SphI GCATGC 1 cut(s) 1507
Sse9I AATT 8 cut(s) 285, 313, 406, 459, 829, 899, 1067, 1303
SsiI CCGC 8 cut(s) 111, 186, 231, 401, 438, 692, 866, 1580
SspMI CTAG 2 cut(s) 1364, 1518
SstI GAGCTC 1 cut(s) 1494
StyD4I CCNGG 2 cut(s) 1420, 1729
TaaI ACNGT 7 cut(s) 248, 374, 472, 800, 913, 1024, 1402
TaiI ACGT 1 cut(s) 1683
TaqI TCGA 2 cut(s) 793, 875
TasI AATT 8 cut(s) 285, 313, 406, 459, 829, 899, 1067, 1303
TatI WGTACW 1 cut(s) 540
TauI GCSGC 2 cut(s) 233, 869
Tru1I TTAA 7 cut(s) 429, 605, 665, 1389, 1497, 1572, 1771
Tru9I TTAA 7 cut(s) 429, 605, 665, 1389, 1497, 1572, 1771
TscAI CASTG 3 cut(s) 805, 940, 1528
TseFI GTSAC 4 cut(s) 181, 647, 1024, 1046
TseI GCWGC 6 cut(s) 163, 268, 1535, 1589, 1734, 1737
Tsp45I GTSAC 4 cut(s) 181, 647, 1024, 1046
TspRI CASTG 3 cut(s) 805, 940, 1528
Vha464I CTTAAG 1 cut(s) 428
XapI RAATTY 2 cut(s) 285, 313
XceI RCATGY 4 cut(s) 1078, 1150, 1350, 1507
XmnI GAANNNNTTC 1 cut(s) 1323
XspI CTAG 2 cut(s) 1364, 1518
Zsp2I ATGCAT 2 cut(s) 784, 1094
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.