MD08G1069200.v1.1

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr08
OG0008873
Physical Location & Seq
Reverse (-)
5497985 .. 5500685
2701 bp
Loading structure...
UTR
Exon/CDS
Intron
MD08G1069200.v1.1.491

Sequence Viewer

Length: 2325 bp
ATGGATTGGTTTCACAAGGCGAAGTTGATCGAGAATGGGAAATGCTTGTTTTTGTACAATGCGATTTTGGATGCGCTGATTAGGGCTGACAGGTTGAGTTTGGCTAAGGAAATACATGATCACCTTGTGAAGGAAGCTCTGGTGAAGCCGGATGTTTTTACCTGTACGATAATGATCAGAGGGTTTTGCAAAATGGGTGAAATGGAGAATGCACATAAGGTGTTTGATGAAATGACCTGTGAGCCTAATCTAACTTACAGTGCTTTGATTCACGGGTTTTGTAACAAGGGTGATAATATGAATGCCCAGAAGGTGTTTGATGAAATGACTTGCAAGCCGAATCTTATTACTTACAATACTATGATTCATGGATTTTGTCAGAAGTGTGATGTTAAGAATGCGCGGAAGGGTGATTTGGATACTGCAAGGCGAGTTTTGGATCAAATGAAGGATAGTAAGGATTGCTTGCCCAGTACGGTAACTTATACAACTTTGATTGATGGGTACTGTAAGAAAGGCGAGTTGGAAGAGGCGATGAAGTGCATGAGTGAAATGAAGAAGCAGGGTTGTTTGCCTGGTTTGTTACAATGCTCTGATTCGTGGTGTAAGAGAGGCGAGTTGGAAGAGGCGATGAAGTGCATGAGTGAAATGAAGAAGCAGGATTGTGAGCCTAACATGTTTACTTACAATGCTCTGATTCATGGGTTTTTCAACAACGGTGACACTAAGAGTGCCCAGAAGGTGTTTGATGAAATGACTTGCAAGCGTGATATAATTACTTACAATACTATGATTCATGGGTTTTGTAAGACTAGTGATTTTGATAGTGCGAGGCAAGTTTTGGGTTGTATGAGGGAAAATAAGGATTGTTTGCCTGATACGGTAACATATACAACTTTGATTGATGGGTATTATAAGAAAGGCGAGTTGGAGGAGGCGATGAAGTGCATGAGTGAGACGGAGAAGCAGGGTAGTGAGCCTAATCAGATTAGCTACAGTATTTTGATTCATTGTTTGGGTAAGAAGGGTGATGTTAAGAATGCCCAGAAGATGTTTAATGAAATGATTTGTGAGCCAAATGTGATTACTTATAATACCATGATTCATGGGTTTTTTAAGATGGGTGATTTTGATAGTGCTAGGAGAGTTTTGGTTCGGATGACAGAGAGTAGGGATTGCTTGCCTGATAGGATAACTTGTACAATATTGATTGATGGGTATTGTAAGAAAGGCAAGTCAGAGGAGGCGATGAAGTGTATGTATGAAATGGAGAAGCATGGTTGTGAGCCAGATGTGATCACTTATAGTACCATGATTCATGGGTTTTGTAGGAAGGGTGATTTTGATAGTGCATGGAGAGTTTTGGGTCACATGAGGGAGAGTAAGGATTGCTTGCCTGATTCGGTAACTTATACAACTTTGATTGATGGGTATTGCAAGAAAGGCAAGTTGGAGAAGGCGATGAAGTGCATGAGTGAAATGGAGAAACTGGGTTGTGAGCCTAATCTGTTCAGTTACAATGCTCTGATTCATGGTTTGTGTTTGAGTGGGCAGATTGGTGAGGTGAAGGAGATGGTGACAAAGATGAGATTACATTGTGTGAAGGATGATATAGTAACACACATGACTATCTTGAAAGGGCTTTGCATTGAGGGGGGGCCAGACACCGCCACTAAACATCTTAAAGATATAGTGAGCCTTGGGATGAAACCTGAAGTGGCATATGTGGTGATTATTAATGAGTACCGTAAGTTGAGAAAACCAGATGGAGCGATTTCGCTTTTGAAGGAAATAAATATGAGAGGCCTAGAGCTGAGTGTTTCATGCTTTAATAGACTACTCAGAGTTCTTGTTGAAAGTGGGGAACCTGAAAGAGCTATTTTTCCTCTAAAGGAAATGCATCAAATGGGTTGCTCTCCGAATTTCTTTTCGTATAACACAGTGATATGCAGTCTTTGTGATATGAGAGGTAGAATGGGGGAAGTTGAAGAGCTTGTTCGTGACATGCTTGGGAATGGTCACGAGCTACGTACCAACCTCCACGGTTGCATAAATAAGGGTTATTGCGAAGATGGCAACGTGAATATGGCAGTGCAGACTTTCTGTGGAACCCTGGATAACAATAACATTTTCAGTTTGGAGAGATTTTCGATTTTGATCAAGGAATTGTGCGCAAAAGGGATGGTGGTTGAATCTGAGAGGATATTTGATTACATGAGTAAGAAATGCACTGTGGTTGATGTAGATAGTTACAGAAGAGTGGTAGATGAACATTTATGTTTGTCTGGGAGAAGGAAGGAGGCACTTGACAGTGAAGCAAATTAG
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

775

Amino Acids

88.04

Weight (kDa)

6.28

Isoelectric Point (pI)

36.07

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 16 - 64 1.2e-08 PPR repeat family
PPR_1 PF12854 48 - 79 1.1e-09 PPR repeat
PPR_2 PF13041 50 - 79 3.1e-08 PPR repeat family
PPR PF01535 53 - 79 9.6e-07 PPR repeat
PPR_2 PF13041 85 - 127 1.2e-11 PPR repeat family
PPR_3 PF13812 85 - 123 6.3e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 85 - 110 2.6e-08 PPR repeat
PPR_1 PF12854 111 - 150 6.9e-09 PPR repeat
TPR_24 PF23276 133 - 251 1.3e-07 Fungal tetratrico peptide repeats
PPR_3 PF13812 145 - 194 1.5e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 153 - 186 3.9e-13 PPR repeat
PPR_2 PF13041 157 - 192 2.5e-13 PPR repeat family
PPR PF01535 160 - 190 5.3e-11 PPR repeat
PPR_2 PF13041 200 - 237 1.2e-11 PPR repeat family
PPR_3 PF13812 214 - 253 1.1e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 221 - 253 1.4e-11 PPR repeat
PPR_2 PF13041 224 - 270 7.1e-14 PPR repeat family
PPR PF01535 227 - 254 4.8e-06 PPR repeat
PPR_1 PF12854 254 - 285 1.1e-08 PPR repeat
PPR_2 PF13041 256 - 303 1.4e-12 PPR repeat family
PPR PF01535 259 - 287 2.8e-06 PPR repeat
PPR_3 PF13812 287 - 341 1.2e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 288 - 315 1e-08 PPR repeat
PPR_2 PF13041 292 - 340 4.7e-15 PPR repeat family
PPR PF01535 295 - 324 3.4e-06 PPR repeat
PPR_1 PF12854 324 - 355 1.5e-09 PPR repeat
PPR_1 PF12854 357 - 387 1.7e-10 PPR repeat
PPR_2 PF13041 359 - 409 2.2e-14 PPR repeat family
PPR PF01535 362 - 390 7.6e-06 PPR repeat
PPR_3 PF13812 392 - 440 3.7e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 392 - 424 1.7e-07 PPR repeat
PPR_2 PF13041 395 - 444 8.7e-20 PPR repeat family
PPR PF01535 398 - 428 1.2e-08 PPR repeat
PPR_1 PF12854 426 - 459 3e-14 PPR repeat
PPR_2 PF13041 432 - 480 3.6e-16 PPR repeat family
PPR PF01535 433 - 461 1e-06 PPR repeat
PPR_1 PF12854 462 - 495 7.8e-14 PPR repeat
PPR_3 PF13812 462 - 511 3.2e-11 Pentatricopeptide repeat domain
PPR_2 PF13041 466 - 514 5e-21 PPR repeat family
PPR PF01535 469 - 499 1.2e-10 PPR repeat
PPR_1 PF12854 498 - 530 8.8e-08 PPR repeat
PPR_3 PF13812 593 - 649 2.8e-08 Pentatricopeptide repeat domain
PPR_2 PF13041 606 - 654 5.4e-08 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 2 cut(s) 915, 1092
Acc16I TGCGCA 1 cut(s) 2173
AccII CGCG 1 cut(s) 403
AciI CCGC 2 cut(s) 403, 1668
AclWI GGATC 1 cut(s) 447
AcsI RAATTY 1 cut(s) 1921
AcuI CTGAAG 1 cut(s) 1734
AdeI CACNNNGTG 1 cut(s) 127
AfaI GTAC 8 cut(s) 56, 166, 475, 506, 1201, 1309, 1745, 2032
AfiI CCNNNNNNNGG 1 cut(s) 130
AflIII ACRYGT 1 cut(s) 675
AgsI TTSAA 6 cut(s) 712, 1636, 1786, 1856, 1988, 2192
AhlI ACTAGT 1 cut(s) 812
AjnI CCWGG 2 cut(s) 574, 2112
AjuI GAANNNNNNNTTGG 8 cut(s) 398, 430, 506, 538, 911, 943, 1433, 1465
AluBI AGCT 6 cut(s) 137, 993, 1813, 1877, 1993, 2026
AluI AGCT 6 cut(s) 137, 993, 1813, 1877, 1993, 2026
Alw26I GTCTC 1 cut(s) 950
AlwI GGATC 1 cut(s) 447
AoxI GGCC 2 cut(s) 1658, 1804
ApoI RAATTY 1 cut(s) 1921
AseI ATTAAT 1 cut(s) 1737
AspLEI GCGC 3 cut(s) 76, 403, 2174
AspS9I GGNCC 1 cut(s) 1658
BaeGI GKGCMC 1 cut(s) 736
BauI CACGAG 1 cut(s) 2021
BccI CCATC 9 cut(s) 494, 899, 1114, 1208, 1421, 1567, 1760, 2066, 2176
BciT130I CCWGG 2 cut(s) 576, 2114
BciVI GTATCC 1 cut(s) 412
BclI TGATCA 4 cut(s) 118, 174, 1296, 2157
BcoDI GTCTC 1 cut(s) 950
BcuI ACTAGT 1 cut(s) 812
BfaI CTAG 3 cut(s) 813, 1140, 1808
BfmI CTRYAG 1 cut(s) 994
BfuI GTATCC 1 cut(s) 412
Bme1390I CCNGG 2 cut(s) 576, 2114
BmgT120I GGNCC 1 cut(s) 1658
BmiI GGNNCC 3 cut(s) 1659, 1866, 2110
BmrFI CCNGG 2 cut(s) 576, 2114
BmrI ACTGGG 2 cut(s) 465, 1499
BmsI GCATC 2 cut(s) 61, 1909
BmuI ACTGGG 2 cut(s) 465, 1499
Bpu10I CCTNAGC 1 cut(s) 105
BsaAI YACGTR 1 cut(s) 2030
BsaBI GATNNNNATC 2 cut(s) 173, 2156
BsaJI CCNNGG 3 cut(s) 1699, 2041, 2112
Bsc4I CCNNNNNNNGG 1 cut(s) 130
Bse1I ACTGG 2 cut(s) 471, 1494
Bse8I GATNNNNATC 2 cut(s) 173, 2156
BseBI CCWGG 2 cut(s) 576, 2114
BseDI CCNNGG 3 cut(s) 1699, 2041, 2112
BseGI GGATG 6 cut(s) 76, 157, 1164, 1612, 1710, 2187
BseJI GATNNNNATC 2 cut(s) 173, 2156
BseLI CCNNNNNNNGG 1 cut(s) 130
BseMII CTCAG 3 cut(s) 1805, 1855, 2187
BseNI ACTGG 2 cut(s) 471, 1494
BseRI GAGGAG 2 cut(s) 947, 1256
BseSI GKGCMC 1 cut(s) 736
BsgI GTGCAG 1 cut(s) 2114
Bsh1236I CGCG 1 cut(s) 403
BshFI GGCC 2 cut(s) 1660, 1806
BsiSI CCGG 1 cut(s) 149
BslI CCNNNNNNNGG 1 cut(s) 130
BsmAI GTCTC 1 cut(s) 950
BsmBI CGTCTC 1 cut(s) 950
BsmI GAATGC 4 cut(s) 214, 307, 403, 1045
BsnI GGCC 2 cut(s) 1660, 1806
Bsp1286I GDGCHC 1 cut(s) 736
Bsp1407I TGTACA 2 cut(s) 54, 1199
Bsp143I GATC 6 cut(s) 27, 118, 174, 439, 1296, 2157
BspACI CCGC 2 cut(s) 403, 1668
BspANI GGCC 2 cut(s) 1660, 1806
BspCNI CTCAG 3 cut(s) 1806, 1854, 2188
BspFNI CGCG 1 cut(s) 403
BspLI GGNNCC 3 cut(s) 1659, 1866, 2110
BspPI GGATC 1 cut(s) 447
BspQI GCTCTTC 1 cut(s) 1983
BsrGI TGTACA 2 cut(s) 54, 1199
BsrI ACTGG 2 cut(s) 471, 1494
BssECI CCNNGG 3 cut(s) 1699, 2041, 2112
BssMI GATC 6 cut(s) 27, 118, 174, 439, 1296, 2157
BssSI CACGAG 1 cut(s) 2021
BssT1I CCWWGG 1 cut(s) 1699
Bst2BI CACGAG 1 cut(s) 2021
Bst2UI CCWGG 2 cut(s) 576, 2114
Bst6I CTCTTC 4 cut(s) 522, 618, 1983, 2251
BstAUI TGTACA 2 cut(s) 54, 1199
BstBAI YACGTR 1 cut(s) 2030
BstC8I GCNNGC 5 cut(s) 335, 467, 764, 1181, 1394
BstDEI CTNAG 5 cut(s) 105, 726, 1814, 1841, 2196
BstDSI CCRYGG 1 cut(s) 2041
BstENI CCTNNNNNAGG 1 cut(s) 128
BstF5I GGATG 6 cut(s) 76, 157, 1164, 1612, 1710, 2187
BstFNI CGCG 1 cut(s) 403
BstHHI GCGC 3 cut(s) 76, 403, 2174
BstKTI GATC 6 cut(s) 30, 121, 177, 442, 1299, 2160
BstMAI GTCTC 1 cut(s) 950
BstMBI GATC 6 cut(s) 27, 118, 174, 439, 1296, 2157
BstMWI GCNNNNNNNGC 2 cut(s) 1443, 2073
BstNI CCWGG 2 cut(s) 576, 2114
BstNSI RCATGY 2 cut(s) 679, 2008
BstSCI CCNGG 2 cut(s) 574, 2112
BstSFI CTRYAG 1 cut(s) 994
BstSLI GKGCMC 1 cut(s) 736
BstSNI TACGTA 1 cut(s) 2030
BstUI CGCG 1 cut(s) 403
BsuI GTATCC 1 cut(s) 412
BsuRI GGCC 2 cut(s) 1660, 1806
BtgI CCRYGG 1 cut(s) 2041
BtgZI GCGATG 5 cut(s) 548, 644, 953, 1262, 1475
BtsCI GGATG 6 cut(s) 76, 157, 1164, 1612, 1710, 2187
BtsI GCAGTG 1 cut(s) 2097
BtsIMutI CAGTG 5 cut(s) 265, 1947, 2097, 2229, 2317
Cac8I GCNNGC 5 cut(s) 335, 467, 764, 1181, 1394
CfoI GCGC 3 cut(s) 76, 403, 2174
Cfr13I GGNCC 1 cut(s) 1658
Csp6I GTAC 8 cut(s) 55, 165, 474, 505, 1200, 1308, 1744, 2031
CviQI GTAC 8 cut(s) 55, 165, 474, 505, 1200, 1308, 1744, 2031
DdeI CTNAG 5 cut(s) 105, 726, 1814, 1841, 2196
DpnI GATC 6 cut(s) 29, 120, 176, 441, 1298, 2159
DpnII GATC 6 cut(s) 27, 118, 174, 439, 1296, 2157
DraIII CACNNNGTG 1 cut(s) 127
Eam1104I CTCTTC 4 cut(s) 522, 618, 1983, 2251
EarI CTCTTC 4 cut(s) 522, 618, 1983, 2251
Eco105I TACGTA 1 cut(s) 2030
Eco130I CCWWGG 1 cut(s) 1699
Eco147I AGGCCT 1 cut(s) 1806
Eco57I CTGAAG 1 cut(s) 1734
EcoNI CCTNNNNNAGG 1 cut(s) 128
EcoRII CCWGG 2 cut(s) 574, 2112
EcoT14I CCWWGG 1 cut(s) 1699
EcoT22I ATGCAT 1 cut(s) 1902
ErhI CCWWGG 1 cut(s) 1699
Esp3I CGTCTC 1 cut(s) 950
FalI AAGNNNNNCTT 4 cut(s) 449, 481, 1376, 1408
FauNDI CATATG 1 cut(s) 1723
FbaI TGATCA 4 cut(s) 118, 174, 1296, 2157
FokI GGATG 6 cut(s) 83, 164, 1171, 1619, 1717, 2194
FspBI CTAG 3 cut(s) 813, 1140, 1808
FspI TGCGCA 1 cut(s) 2173
GlaI GCGC 3 cut(s) 75, 402, 2173
HaeIII GGCC 2 cut(s) 1660, 1806
HapII CCGG 1 cut(s) 149
HhaI GCGC 3 cut(s) 76, 403, 2174
Hin6I GCGC 3 cut(s) 74, 401, 2172
HinP1I GCGC 3 cut(s) 74, 401, 2172
HpaII CCGG 1 cut(s) 149
Hpy166II GTNNAC 1 cut(s) 681
Hpy188III TCNNGA 4 cut(s) 31, 1633, 2000, 2021
Hpy8I GTNNAC 1 cut(s) 681
HpyCH4IV ACGT 2 cut(s) 2029, 2079
HpyF10VI GCNNNNNNNGC 2 cut(s) 1443, 2073
HpyF3I CTNAG 5 cut(s) 105, 726, 1814, 1841, 2196
HpySE526I ACGT 2 cut(s) 2029, 2079
HspAI GCGC 3 cut(s) 74, 401, 2172
Ksp22I TGATCA 4 cut(s) 118, 174, 1296, 2157
Kzo9I GATC 6 cut(s) 27, 118, 174, 439, 1296, 2157
LguI GCTCTTC 1 cut(s) 1983
LmnI GCTCC 1 cut(s) 1769
LweI GCATC 2 cut(s) 61, 1909
MaeI CTAG 3 cut(s) 813, 1140, 1808
MaeII ACGT 2 cut(s) 2029, 2079
MalI GATC 6 cut(s) 29, 120, 176, 441, 1298, 2159
MboI GATC 6 cut(s) 27, 118, 174, 439, 1296, 2157
MboII GAAGA 8 cut(s) 539, 568, 635, 664, 1060, 2000, 2081, 2268
MhlI GDGCHC 1 cut(s) 736
MluCI AATT 4 cut(s) 774, 1921, 2165, 2320
MmeI TCCRAC 4 cut(s) 504, 600, 909, 1431
Mph1103I ATGCAT 1 cut(s) 1902
MseI TTAA 7 cut(s) 393, 1035, 1056, 1116, 1683, 1737, 1830
MslI CAYNNNNRTG 1 cut(s) 1281
MspI CCGG 1 cut(s) 149
MspR9I CCNGG 2 cut(s) 576, 2114
Mva1269I GAATGC 4 cut(s) 214, 307, 403, 1045
MvaI CCWGG 2 cut(s) 576, 2114
MvnI CGCG 1 cut(s) 403
MwoI GCNNNNNNNGC 2 cut(s) 1443, 2073
NdeI CATATG 1 cut(s) 1723
NdeII GATC 6 cut(s) 27, 118, 174, 439, 1296, 2157
NlaIV GGNNCC 3 cut(s) 1659, 1866, 2110
NmuCI GTSAC 5 cut(s) 719, 1367, 1576, 2000, 2018
NsbI TGCGCA 1 cut(s) 2173
NsiI ATGCAT 1 cut(s) 1902
NspI RCATGY 2 cut(s) 679, 2008
PceI AGGCCT 1 cut(s) 1806
PciI ACATGT 1 cut(s) 675
PciSI GCTCTTC 1 cut(s) 1983
PctI GAATGC 4 cut(s) 214, 307, 403, 1045
Ppu21I YACGTR 1 cut(s) 2030
PscI ACATGT 1 cut(s) 675
PshBI ATTAAT 1 cut(s) 1737
PsiI TTATAA 2 cut(s) 915, 1092
Psp6I CCWGG 2 cut(s) 574, 2112
PspGI CCWGG 2 cut(s) 574, 2112
PspN4I GGNNCC 3 cut(s) 1659, 1866, 2110
PspPI GGNCC 1 cut(s) 1658
RsaI GTAC 8 cut(s) 56, 166, 475, 506, 1201, 1309, 1745, 2032
RsaNI GTAC 8 cut(s) 55, 165, 474, 505, 1200, 1308, 1744, 2031
RseI CAYNNNNRTG 1 cut(s) 1281
SapI GCTCTTC 1 cut(s) 1983
SaqAI TTAA 7 cut(s) 393, 1035, 1056, 1116, 1683, 1737, 1830
Sau3AI GATC 6 cut(s) 27, 118, 174, 439, 1296, 2157
Sau96I GGNCC 1 cut(s) 1658
ScrFI CCNGG 2 cut(s) 576, 2114
SduI GDGCHC 1 cut(s) 736
SfaNI GCATC 2 cut(s) 61, 1909
SfcI CTRYAG 1 cut(s) 994
SmiMI CAYNNNNRTG 1 cut(s) 1281
SnaBI TACGTA 1 cut(s) 2030
SpeI ACTAGT 1 cut(s) 812
Sse9I AATT 4 cut(s) 774, 1921, 2165, 2320
SseBI AGGCCT 1 cut(s) 1806
SsiI CCGC 2 cut(s) 403, 1668
SspI AATATT 1 cut(s) 1206
SspMI CTAG 3 cut(s) 813, 1140, 1808
StuI AGGCCT 1 cut(s) 1806
StyD4I CCNGG 2 cut(s) 574, 2112
StyI CCWWGG 1 cut(s) 1699
TaiI ACGT 2 cut(s) 2032, 2082
TaqI TCGA 2 cut(s) 30, 2150
TasI AATT 4 cut(s) 774, 1921, 2165, 2320
TatI WGTACW 2 cut(s) 54, 1199
Tru1I TTAA 7 cut(s) 393, 1035, 1056, 1116, 1683, 1737, 1830
Tru9I TTAA 7 cut(s) 393, 1035, 1056, 1116, 1683, 1737, 1830
TscAI CASTG 5 cut(s) 265, 1947, 2097, 2236, 2317
TseFI GTSAC 5 cut(s) 719, 1367, 1576, 2000, 2018
Tsp45I GTSAC 5 cut(s) 719, 1367, 1576, 2000, 2018
TspGWI ACGGA 1 cut(s) 974
TspRI CASTG 5 cut(s) 265, 1947, 2097, 2236, 2317
VspI ATTAAT 1 cut(s) 1737
XagI CCTNNNNNAGG 1 cut(s) 128
XapI RAATTY 1 cut(s) 1921
XceI RCATGY 2 cut(s) 679, 2008
XspI CTAG 3 cut(s) 813, 1140, 1808
Zsp2I ATGCAT 1 cut(s) 1902
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.