MD13G1149200.v1.1

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr13
OG0008613
Physical Location & Seq
Reverse (-)
11727153 .. 11729156
2004 bp
Loading structure...
UTR
Exon/CDS
Intron
MD13G1149200.v1.1.491

Sequence Viewer

Length: 2004 bp
ATGTATTTGAAGGAAGGACGCTCCTTGCTGCTGAAAGTTCACAAACCATCAGTCCCATTTGTGCTCAATACAACAAACCCAATTCTCGGTTCAAACCCTAAACCCCAAATCGAACCCAATCAAGATCAACCCTTTCTCAAAGAGTCTGATGTGTTGCAGAGGTTGAAATCCGAGCACCATTTGGGCTCTGCGTTAGAGTATTTCAGGTCAATTGCCAATTCCAGAGCTTTTGAGCATACCCCATTGACGTACCATGCCATGATTGAGAAGCTTGGGAGGCAATGTGAGATGGATGGTGTGCAGTACTTGTTGAACCAGATGAAATTGGAGGGAGTTGGGTGCTCTGAGGAGCTGTTTATATGTGTGATCAGCTCGTATCGGCGAGCTGGGTTGGCTGAGCAGGCCTTGAAGATGTTCTATAGGATTAGGGAATTTGGGTGCAAATCCACTGTCAAGATTTACAATCACCTCTTGGATGCTCTGCTTAGCGAAAATCGGTTTCAGATGATTAACCCGATATATAGCAATATGAAGAAAGATGGGATGGAGCCAAATGTATATACTTATAACATTCTGTTGAAGGCATTGTGTAAGAATGATAGGGTTGATGGTGCTCACAAACTGCTTGTTGAAATGTCTAAGAAGGGGTGTTTGCCGGACGCAGTGAGCTATACCACTGTAGTGTCTGCATTATGTAGACTTGGGAAGGTAGAGGAAGCTAGGGAGCTTGCTGGTAGGTTTGAACCCATTGTGCCTGTTTATAATGCTTTGGTGAATGGGGTGTGCAAGGAGAACAAAATTGAGGCGGCTTTGAAGTTGTTGGTTGAAATGGTGGATAAGGGTATAAACCCTAATGTTATCACATACTCAACGATTATTAATTCACTTTCTGATACGAGGAATGTTGAGTCTGCTCTTGCAGTTTTGGCTCAAATGATTGTGAGAGGATGTAGCCCTAATGTTCACACCTTTACTTCCTTGATAAAGGGCTATTTTGTGGAAGGGAGAGTACACGAAGCTCTTGACTTGTGGAATCGGATGATTCTCGAGGAATTTAAGCCAAATATTATTGCATACACTACTCTGGTACATGGTCTCTGCACTAATGGAAAAATGGGGGATGCTGTATCTGTTTGCCATGAGATGGACAAAAATGGTTGCCCTCCAAATGTGACCACATATAGCACTCTGATTGATGGCTTTGCCAAAGTTGGTGACCTTGTTGGTGCATCTGACACTTGGAACAATATGATGAACCGTGGTTGCCGCCCTAATGTTATAGCATATACTTGCATGGTGGATGTTCTCTGTAGGAATTTTATGTTTCATCAAGCTCGTAGTCTTGTAGAAAATATGGCTGCTGAAGGTTGTCCTCCGAATACAGTTACATTTAACACATTTATCAAAGGGTTATGTGCTGATGGAAAGGTAGATTGGGCTGTCAACATGCTCGATAAAATGGAGAAAAATGGGTGTTTGCCTAACATTACAACATATAATGAGTTACTGGATGGTCTCTTCAAGGCGAACAGATTTGAAGAAGCTTATGGAATTGTTAGGGAGATAGAAGAAAGAGGGATGATGATGAATTTGGTAACTTACAATACCATTTTGAATGGTTTTTGTCATGTAGGAATGACCAAGGAGGCTATGCAGCTTTTAGGAAAGATGCTGGTAAGGGGAACGAAGCCTGATGCGATCACATATAACACGATTATATATGCCAATTGTAAGGAAGGTACGATAAGCACTGCGATTCAGCTTTTCGACAGAATTGGTGCAGAAAAGCAGTGGCGACCAGATGTAGTAGCATATACTAGTCTTGTGTGGGGGATTTGTAATTGGGTAGGTTTAGATGAGGCCATGATTTATCTAAATAAGATGGTAAGTGAAGGGATCTGCCCCAACACGGGCACATGGAATTCGTTGGTGCGGTGTTTCTTTAGCAGTTTAGGTCATTTGGGGCCAATCTACATGCTGGACGATATAGTTCGCAATCGATAA

Protein Analysis

668

Amino Acids

74.88

Weight (kDa)

7.15

Isoelectric Point (pI)

26.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_long PF17177 129 - 243 4.7e-06 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 151 - 198 5.5e-15 PPR repeat family
PPR_3 PF13812 153 - 198 1.9e-08 Pentatricopeptide repeat domain
PPR_3 PF13812 173 - 230 1.4e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 180 - 213 1.1e-11 PPR repeat
PPR PF01535 187 - 217 3.3e-07 PPR repeat
PPR_2 PF13041 188 - 233 2.1e-15 PPR repeat family
PPR_1 PF12854 215 - 243 9.7e-09 PPR repeat
PPR_3 PF13812 251 - 295 2.8e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 252 - 297 4.5e-15 PPR repeat family
PPR PF01535 253 - 282 9.9e-06 PPR repeat
PPR_1 PF12854 253 - 278 4.7e-06 PPR repeat
PPR_3 PF13812 272 - 331 1.1e-11 Pentatricopeptide repeat domain
PPR_1 PF12854 280 - 312 3.5e-06 PPR repeat
PPR_2 PF13041 291 - 331 2.4e-09 PPR repeat family
PPR_1 PF12854 315 - 347 7.1e-10 PPR repeat
PPR PF01535 323 - 349 7.6e-06 PPR repeat
PPR_2 PF13041 325 - 367 3.3e-10 PPR repeat family
PPR_3 PF13812 350 - 399 1.9e-10 Pentatricopeptide repeat domain
PPR_1 PF12854 352 - 382 8e-09 PPR repeat
PPR_2 PF13041 354 - 403 1.3e-17 PPR repeat family
PPR_1 PF12854 385 - 417 2.6e-07 PPR repeat
PPR_long PF17177 394 - 538 4.2e-09 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 396 - 438 8.6e-10 PPR repeat family
PPR_2 PF13041 424 - 472 1.8e-13 PPR repeat family
PPR_3 PF13812 447 - 503 3e-10 Pentatricopeptide repeat domain
TPR_24 PF23276 450 - 554 6e-06 Fungal tetratrico peptide repeats
PPR_1 PF12854 456 - 488 1.1e-13 PPR repeat
PPR_2 PF13041 459 - 508 1.2e-15 PPR repeat family
PPR PF01535 462 - 492 8.9e-07 PPR repeat
PPR_1 PF12854 490 - 522 2.7e-06 PPR repeat
PPR_2 PF13041 494 - 543 2.4e-13 PPR repeat family
PPR_3 PF13812 518 - 575 6.2e-10 Pentatricopeptide repeat domain
PPR_1 PF12854 525 - 557 1.2e-09 PPR repeat
PPR_2 PF13041 530 - 578 7e-15 PPR repeat family
PPR PF01535 532 - 561 3.9e-07 PPR repeat
PPR_1 PF12854 561 - 591 9.1e-08 PPR repeat
PPR_2 PF13041 600 - 647 8.7e-07 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) 567, 762
AccB7I CCANNNNNTGG 1 cut(s) 1144
AccI GTMKAC 1 cut(s) 697
AciI CCGC 3 cut(s) 806, 1267, 1933
AclWI GGATC 1 cut(s) 1904
AcsI RAATTY 5 cut(s) 431, 1052, 1315, 1588, 1921
AcuI CTGAAG 1 cut(s) 1383
AfaI GTAC 5 cut(s) 251, 305, 1011, 1089, 1741
AfiI CCNNNNNNNGG 4 cut(s) 86, 1144, 1909, 1910
AhlI ACTAGT 1 cut(s) 1817
AjuI GAANNNNNNNTTGG 4 cut(s) 73, 105, 1417, 1449
AleI CACNNNNGTG 1 cut(s) 680
Alw21I GWGCWC 4 cut(s) 66, 177, 344, 616
Alw26I GTCTC 2 cut(s) 1100, 1520
AlwI GGATC 1 cut(s) 1904
Ama87I CYCGRG 1 cut(s) 1046
AoxI GGCC 3 cut(s) 402, 1860, 1964
ApeKI GCWGC 3 cut(s) 28, 1358, 1654
ApoI RAATTY 5 cut(s) 431, 1052, 1315, 1588, 1921
ArsI GACNNNNNNTTYG 4 cut(s) 36, 68, 435, 467
AseI ATTAAT 1 cut(s) 879
Asp700I GAANNNNTTC 1 cut(s) 413
AspS9I GGNCC 1 cut(s) 1964
AsuHPI GGTGA 3 cut(s) 458, 784, 1226
AvaI CYCGRG 1 cut(s) 1046
BaeGI GKGCMC 1 cut(s) 1916
BanII GRGCYC 1 cut(s) 188
BarI GAAGNNNNNNTAC 2 cut(s) 993, 1025
Bbv12I GWGCWC 4 cut(s) 66, 177, 344, 616
BbvI GCAGC 3 cut(s) 15, 1345, 1666
BclI TGATCA 1 cut(s) 366
BcoDI GTCTC 2 cut(s) 1100, 1520
BcuI ACTAGT 1 cut(s) 1817
BfaI CTAG 2 cut(s) 720, 1818
BfmI CTRYAG 3 cut(s) 418, 678, 1309
BisI GCNGC 5 cut(s) 29, 807, 1267, 1359, 1655
BlpI GCTNAGC 2 cut(s) 396, 485
BlsI GCNGC 5 cut(s) 30, 808, 1268, 1360, 1656
BmcAI AGTACT 1 cut(s) 305
BmeT110I CYCGRG 1 cut(s) 1046
BmgT120I GGNCC 1 cut(s) 1964
BmiI GGNNCC 2 cut(s) 549, 1965
BmsI GCATC 5 cut(s) 466, 1111, 1238, 1659, 1684
Bpu1102I GCTNAGC 2 cut(s) 396, 485
Bsa29I ATCGAT 1 cut(s) 1999
BsaI GGTCTC 2 cut(s) 1100, 1520
BsaJI CCNNGG 2 cut(s) 1258, 1641
BsaXI ACNNNNNCTCC 2 cut(s) 268, 298
Bsc4I CCNNNNNNNGG 4 cut(s) 86, 1144, 1909, 1910
Bse1I ACTGG 1 cut(s) 1512
Bse3DI GCAATG 1 cut(s) 287
BseCI ATCGAT 1 cut(s) 1999
BseDI CCNNGG 2 cut(s) 1258, 1641
BseGI GGATG 9 cut(s) 298, 481, 549, 953, 1044, 1126, 1306, 1516, 1584
BseLI CCNNNNNNNGG 4 cut(s) 86, 1144, 1909, 1910
BseMI GCAATG 1 cut(s) 287
BseMII CTCAG 2 cut(s) 336, 387
BseNI ACTGG 1 cut(s) 1512
BseRI GAGGAG 1 cut(s) 362
BseSI GKGCMC 1 cut(s) 1916
BseXI GCAGC 3 cut(s) 15, 1345, 1666
BseYI CCCAGC 1 cut(s) 386
BsgI GTGCAG 3 cut(s) 320, 1084, 1800
BshFI GGCC 3 cut(s) 404, 1862, 1966
BshVI ATCGAT 1 cut(s) 1999
BsiHKAI GWGCWC 4 cut(s) 66, 177, 344, 616
BsiHKCI CYCGRG 1 cut(s) 1046
BsiSI CCGG 1 cut(s) 656
BslFI GGGAC 1 cut(s) 38
BslI CCNNNNNNNGG 4 cut(s) 86, 1144, 1909, 1910
BsmAI GTCTC 2 cut(s) 1100, 1520
BsmFI GGGAC 1 cut(s) 38
BsnI GGCC 3 cut(s) 404, 1862, 1966
Bso31I GGTCTC 2 cut(s) 1100, 1520
BsoBI CYCGRG 1 cut(s) 1046
Bsp1286I GDGCHC 6 cut(s) 66, 177, 188, 344, 616, 1916
Bsp143I GATC 4 cut(s) 124, 366, 1698, 1896
Bsp1720I GCTNAGC 2 cut(s) 396, 485
BspACI CCGC 3 cut(s) 806, 1267, 1933
BspANI GGCC 3 cut(s) 404, 1862, 1966
BspCNI CTCAG 2 cut(s) 337, 388
BspDI ATCGAT 1 cut(s) 1999
BspLI GGNNCC 2 cut(s) 549, 1965
BspPI GGATC 1 cut(s) 1904
BspTNI GGTCTC 2 cut(s) 1100, 1520
BsrDI GCAATG 1 cut(s) 287
BsrI ACTGG 1 cut(s) 1512
BssECI CCNNGG 2 cut(s) 1258, 1641
BssMI GATC 4 cut(s) 124, 366, 1698, 1896
BssT1I CCWWGG 1 cut(s) 1641
Bst4CI ACNGT 4 cut(s) 451, 679, 1259, 1384
Bst6I CTCTTC 1 cut(s) 1523
BstC8I GCNNGC 3 cut(s) 384, 402, 729
BstDEI CTNAG 4 cut(s) 345, 396, 485, 639
BstDSI CCRYGG 1 cut(s) 1258
BstEII GGTNACC 1 cut(s) 1214
BstF5I GGATG 9 cut(s) 298, 481, 549, 953, 1044, 1126, 1306, 1516, 1584
BstKTI GATC 4 cut(s) 127, 369, 1701, 1899
BstMAI GTCTC 2 cut(s) 1100, 1520
BstMBI GATC 4 cut(s) 124, 366, 1698, 1896
BstMWI GCNNNNNNNGC 4 cut(s) 277, 392, 401, 926
BstNSI RCATGY 2 cut(s) 1450, 1978
BstPI GGTNACC 1 cut(s) 1214
BstSFI CTRYAG 3 cut(s) 418, 678, 1309
BstSLI GKGCMC 1 cut(s) 1916
BstV1I GCAGC 3 cut(s) 15, 1345, 1666
BstX2I RGATCY 1 cut(s) 1896
BstYI RGATCY 1 cut(s) 1896
Bsu15I ATCGAT 1 cut(s) 1999
BsuRI GGCC 3 cut(s) 404, 1862, 1966
BsuTUI ATCGAT 1 cut(s) 1999
BtgI CCRYGG 1 cut(s) 1258
BtsCI GGATG 9 cut(s) 298, 481, 549, 953, 1044, 1126, 1306, 1516, 1584
BtsI GCAGTG 3 cut(s) 669, 1749, 1796
BtsIMutI CAGTG 5 cut(s) 447, 669, 675, 1749, 1796
Cac8I GCNNGC 3 cut(s) 384, 402, 729
Cfr13I GGNCC 1 cut(s) 1964
ClaI ATCGAT 1 cut(s) 1999
CseI GACGC 2 cut(s) 27, 668
Csp6I GTAC 5 cut(s) 250, 304, 1010, 1088, 1740
CviQI GTAC 5 cut(s) 250, 304, 1010, 1088, 1740
DdeI CTNAG 4 cut(s) 345, 396, 485, 639
DpnI GATC 4 cut(s) 126, 368, 1700, 1898
DpnII GATC 4 cut(s) 124, 366, 1698, 1896
Eam1104I CTCTTC 1 cut(s) 1523
EarI CTCTTC 1 cut(s) 1523
Eco130I CCWWGG 1 cut(s) 1641
Eco147I AGGCCT 1 cut(s) 404
Eco24I GRGCYC 1 cut(s) 188
Eco31I GGTCTC 2 cut(s) 1100, 1520
Eco57I CTGAAG 1 cut(s) 1383
Eco88I CYCGRG 1 cut(s) 1046
Eco91I GGTNACC 1 cut(s) 1214
EcoO65I GGTNACC 1 cut(s) 1214
EcoRI GAATTC 1 cut(s) 1921
EcoT14I CCWWGG 1 cut(s) 1641
EcoT38I GRGCYC 1 cut(s) 188
ErhI CCWWGG 1 cut(s) 1641
FaqI GGGAC 1 cut(s) 38
FbaI TGATCA 1 cut(s) 366
FblI GTMKAC 1 cut(s) 697
Fnu4HI GCNGC 5 cut(s) 29, 807, 1267, 1359, 1655
FokI GGATG 9 cut(s) 305, 488, 556, 960, 1051, 1133, 1313, 1523, 1591
FriOI GRGCYC 1 cut(s) 188
Fsp4HI GCNGC 5 cut(s) 29, 807, 1267, 1359, 1655
FspBI CTAG 2 cut(s) 720, 1818
GluI GCNGC 5 cut(s) 29, 807, 1267, 1359, 1655
GsaI CCCAGC 1 cut(s) 390
HaeIII GGCC 3 cut(s) 404, 1862, 1966
HapII CCGG 1 cut(s) 656
HgaI GACGC 2 cut(s) 27, 668
HincII GTYRAC 1 cut(s) 1444
HindII GTYRAC 1 cut(s) 1444
HindIII AAGCTT 2 cut(s) 269, 1542
HinfI GANTC 5 cut(s) 143, 908, 1033, 1042, 1756
HpaII CCGG 1 cut(s) 656
HphI GGTGA 3 cut(s) 458, 784, 1226
Hpy166II GTNNAC 5 cut(s) 40, 698, 964, 1012, 1444
Hpy188I TCNGA 9 cut(s) 148, 172, 346, 504, 892, 1038, 1191, 1234, 1377
Hpy188III TCNNGA 5 cut(s) 122, 222, 454, 1022, 1046
Hpy8I GTNNAC 5 cut(s) 40, 698, 964, 1012, 1444
HpyAV CCTTC 9 cut(s) 4, 8, 574, 637, 700, 995, 1358, 1730, 1886
HpyCH4III ACNGT 4 cut(s) 451, 679, 1259, 1384
HpyCH4IV ACGT 1 cut(s) 248
HpyF10VI GCNNNNNNNGC 4 cut(s) 277, 392, 401, 926
HpyF3I CTNAG 4 cut(s) 345, 396, 485, 639
HpySE526I ACGT 1 cut(s) 248
Ksp22I TGATCA 1 cut(s) 366
Kzo9I GATC 4 cut(s) 124, 366, 1698, 1896
LmnI GCTCC 4 cut(s) 26, 349, 547, 724
Lsp1109I GCAGC 3 cut(s) 15, 1345, 1666
LweI GCATC 5 cut(s) 466, 1111, 1238, 1659, 1684
MaeI CTAG 2 cut(s) 720, 1818
MaeII ACGT 1 cut(s) 248
MaeIII GTNAC 5 cut(s) 1171, 1214, 1384, 1503, 1594
MalI GATC 4 cut(s) 126, 368, 1700, 1898
MboI GATC 4 cut(s) 124, 366, 1698, 1896
MboII GAAGA 5 cut(s) 421, 544, 1510, 1550, 1580
MfeI CAATTG 2 cut(s) 210, 1726
MflI RGATCY 1 cut(s) 1896
MhlI GDGCHC 6 cut(s) 66, 177, 188, 344, 616, 1916
MlyI GAGTC 2 cut(s) 152, 917
MroXI GAANNNNTTC 1 cut(s) 413
MseI TTAA 4 cut(s) 510, 879, 1056, 1392
MslI CAYNNNNRTG 1 cut(s) 680
MspI CCGG 1 cut(s) 656
MunI CAATTG 2 cut(s) 210, 1726
MwoI GCNNNNNNNGC 4 cut(s) 277, 392, 401, 926
NdeII GATC 4 cut(s) 124, 366, 1698, 1896
NlaIV GGNNCC 2 cut(s) 549, 1965
NmuCI GTSAC 2 cut(s) 1171, 1214
NspI RCATGY 2 cut(s) 1450, 1978
OliI CACNNNNGTG 1 cut(s) 680
PaeR7I CTCGAG 1 cut(s) 1046
PceI AGGCCT 1 cut(s) 404
PdmI GAANNNNTTC 1 cut(s) 413
PfeI GAWTC 3 cut(s) 1033, 1042, 1756
PflMI CCANNNNNTGG 1 cut(s) 1144
PkrI GCNGC 5 cut(s) 30, 808, 1268, 1360, 1656
PleI GAGTC 2 cut(s) 151, 916
PpsI GAGTC 2 cut(s) 151, 916
PshBI ATTAAT 1 cut(s) 879
PsiI TTATAA 2 cut(s) 567, 762
PspEI GGTNACC 1 cut(s) 1214
PspFI CCCAGC 1 cut(s) 386
PspN4I GGNNCC 2 cut(s) 549, 1965
PspPI GGNCC 1 cut(s) 1964
PsuI RGATCY 1 cut(s) 1896
RsaI GTAC 5 cut(s) 251, 305, 1011, 1089, 1741
RsaNI GTAC 5 cut(s) 250, 304, 1010, 1088, 1740
RseI CAYNNNNRTG 1 cut(s) 680
SaqAI TTAA 4 cut(s) 510, 879, 1056, 1392
SatI GCNGC 5 cut(s) 29, 807, 1267, 1359, 1655
Sau3AI GATC 4 cut(s) 124, 366, 1698, 1896
Sau96I GGNCC 1 cut(s) 1964
ScaI AGTACT 1 cut(s) 305
SchI GAGTC 2 cut(s) 152, 917
SduI GDGCHC 6 cut(s) 66, 177, 188, 344, 616, 1916
SfaNI GCATC 5 cut(s) 466, 1111, 1238, 1659, 1684
SfcI CTRYAG 3 cut(s) 418, 678, 1309
Sfr274I CTCGAG 1 cut(s) 1046
SlaI CTCGAG 1 cut(s) 1046
SmiMI CAYNNNNRTG 1 cut(s) 680
SmlI CTYRAG 1 cut(s) 1046
SmoI CTYRAG 1 cut(s) 1046
SpeI ACTAGT 1 cut(s) 1817
SseBI AGGCCT 1 cut(s) 404
SsiI CCGC 3 cut(s) 806, 1267, 1933
SspI AATATT 1 cut(s) 1066
SspMI CTAG 2 cut(s) 720, 1818
StuI AGGCCT 1 cut(s) 404
StyI CCWWGG 1 cut(s) 1641
TaaI ACNGT 4 cut(s) 451, 679, 1259, 1384
TaiI ACGT 1 cut(s) 251
TaqI TCGA 5 cut(s) 111, 1047, 1452, 1767, 1999
TatI WGTACW 2 cut(s) 303, 1009
TauI GCSGC 2 cut(s) 809, 1269
TfiI GAWTC 3 cut(s) 1033, 1042, 1756
Tru1I TTAA 4 cut(s) 510, 879, 1056, 1392
Tru9I TTAA 4 cut(s) 510, 879, 1056, 1392
TscAI CASTG 5 cut(s) 454, 669, 682, 1756, 1796
TseFI GTSAC 2 cut(s) 1171, 1214
TseI GCWGC 3 cut(s) 28, 1358, 1654
Tsp45I GTSAC 2 cut(s) 1171, 1214
TspDTI ATGAA 5 cut(s) 335, 545, 1268, 1316, 1601
TspRI CASTG 5 cut(s) 454, 669, 682, 1756, 1796
Van91I CCANNNNNTGG 1 cut(s) 1144
VspI ATTAAT 1 cut(s) 879
XapI RAATTY 5 cut(s) 431, 1052, 1315, 1588, 1921
XceI RCATGY 2 cut(s) 1450, 1978
XhoI CTCGAG 1 cut(s) 1046
XmiI GTMKAC 1 cut(s) 697
XmnI GAANNNNTTC 1 cut(s) 413
XspI CTAG 2 cut(s) 720, 1818
ZrmI AGTACT 1 cut(s) 305
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.