MD16G1206400.v1.1

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr16
OG0028523
Physical Location & Seq
Forward (+)
19091577 .. 19093553
1977 bp
Loading structure...
UTR
Exon/CDS
Intron
MD16G1206400.v1.1.491

Sequence Viewer

Length: 1977 bp
ATGAATCACTCGCTGCTGAAACTTGTGCACAAATGCCAAACTCTCAGACCACTGAAATCCATCCATGCCCATCTCCTAGTCACCGGTTCGTTCCTCTCGTCCCACCATATCCTCAACAAGCTCCTCAGGTTGTACTCTCGCTTTGGAGCCATCGACTATGCCCGCAAGCTGTTCGATGAAATTACTCAACCAAATTCCTTTCTTTGGACTGCCTTGATTCATGGGCATGTCGAGAATCGTAGATATGAAGTTGCTTTGTCTCTGTTTTCCCAAATGCATGGTGAGTCCGTTGAGCCATTGAATTTTACTTTTGCATCCGTGCTTAAGGCTTTAGCTAGGCAGAGTAGAGTTCAAGATGGGGAAGCAATTTATGGGTTTGTCTTCAAATTTGGATTCGGTTCTGACTTGACCATTCAAAATGCGGTAATTGACTTGTTTATGAGATGTGGCAAAGTTGATGTCGCTAGGGGTGTATTTGACCAGATGGATGAAAAAGATGTGGTTTCTTGGAATTCGATGATTTCAGGCTATGTAGGTAATGGTAGAGTTGATGTTGCGAGGGAGCTTTTTGATTGGATGCCTGAGAGGAATACAGTTTCATGGACAAGCATGATATGTGGATGTGTGAAGTCTGGGGACATGGCGGAGGCAAGGTTTCTTTTTGAGAAAATGCCAACCAAAGACTTGGTGTCATGGAATGTGATGATTTCTGGGTACACCGATGCCGGTGAAATTGGTAATGCTCTCTCTTTATTTGAAGCAATGCCAATCCGTGAGGTTGGGACTTGGAATCTGATGATTTCGGGGTTATGTAAAGCAGGGGATATCAAACTTGCAGAAGACTTCTTCAATATTATGCCAAATAAGAATGTTGCTTCGTGGACTATAATGATGGATGGCTATATAAAATCTGGCAATATTACTAGTGCAAGGAGCTTATTTGATCAGATGCCAGAGAAGAATTTGGTTTCATGGTCTACCATAATTGGGGGTTATGCTCGAAATGGGGAGCCTCGCAGAGCTTTGGAGATGTACAAACACTTCAAGGAGCTAGGAGTTGGACCAGATGAGACTTTTGTCTTGGGAATCATCTCGGCTTGCTCACAATTAGGAGTTCTTGGTACAGCAGAATCCATTGTGGGTGATTTTTTGGGACAATCAACTCTGTCTAATCTGCAAGTGGTCACTAGTTTGATAGACATGTACGCAAAATGTGGGAGCATTGAAAGGGCTGTACAAATATTTGAAATGGCCCGAAAAAAGGATTTGCTTTGTTATAGCACCATGATTTCAGCCTTTGCCAACCATGGATTGGGTCAAGATGCCATTTCTTTGTTTGAGGAGATGAAGAGGGAAGGCATAAAACCTGATGGCATATGTTTTCTTAGCGTTCTGAGTGCTTGTAACCATGCTGGTTTAGTCACCGAGGGCAGGAGGTACTTTAAACAAATGACATTTGAACATGGAATTCATCCTTCTGTAAAACACTATGCATGTGTTGTTGACCTTCTTGGTCGTGGCGGATGCCTCAGAGAAGCGTACAAGCTTATATGTAAGATGCCGTTTGCAGCTCCTTCAGCTGTATGGGGCGCTTTACTTGCAGCGTGCAGGGTCCATCGCAATGTCCAACTGGCTGAAGTTGCCGCAGCCGAATTATTCAAGATTGAGCCAGACAATTCTGGCAATTATATTCTGTTATCCAATACCTATGCTGCTGCAGGAATGTGGGATGGCGTGGCGAAAGTAAGAGCGTTGATTAGAGAGCATGGGGTTAGAAAAAATAGAGGGTCGAGCTGGATTGAGTTGGGATGTGAAATCCATGAGTTTGTTATGGGAGATATGTCACATTTTGATTCAGAAAGGATATACCTTGTACTGGATTTGCTTAGGGAAGATATGAAGCTTCTGGGTTATTTAGTTGACAGCGAACAGAAAGCAGAATTGTCAAGCTCTGGAAACTATACACAGGTTCAGTAG
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

Protein Analysis

659

Amino Acids

73.36

Weight (kDa)

6.46

Isoelectric Point (pI)

36.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 64 - 113 1e-08 PPR repeat family
PPR_2 PF13041 165 - 197 1.9e-08 PPR repeat family
PPR PF01535 168 - 196 1e-05 PPR repeat
PPR PF01535 199 - 227 8.1e-07 PPR repeat
PPR_2 PF13041 260 - 291 6.3e-07 PPR repeat family
PPR_1 PF12854 260 - 286 2.4e-06 PPR repeat
PPR PF01535 262 - 291 8.7e-07 PPR repeat
PPR_2 PF13041 289 - 321 3.6e-06 PPR repeat family
PPR PF01535 293 - 321 2e-06 PPR repeat
PPR PF01535 323 - 353 4.4e-06 PPR repeat
PPR_2 PF13041 422 - 468 6.8e-10 PPR repeat family
PPR PF01535 425 - 454 4e-08 PPR repeat
E_motif PF20431 539 - 601 7.3e-19 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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Orthologous Genes (Group: OG0028523)

Species Orthologous Gene IDs
malus_domestica MD16G1206400.v1.1
prunus_persica Prupe.1G027400_v2.0.a1

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 1312
AccI GTMKAC 1 cut(s) 977
AciI CCGC 5 cut(s) 163, 422, 644, 1521, 1644
AcsI RAATTY 6 cut(s) 193, 301, 386, 511, 961, 1467
AcuI CTGAAG 2 cut(s) 1560, 1656
AfaI GTAC 9 cut(s) 134, 716, 1034, 1123, 1205, 1236, 1439, 1541, 1875
AfiI CCNNNNNNNGG 6 cut(s) 204, 987, 1261, 1312, 1431, 1876
AflII CTTAAG 1 cut(s) 323
AflIII ACRYGT 1 cut(s) 1200
AgeI ACCGGT 1 cut(s) 83
AhdI GACNNNNNGTC 1 cut(s) 688
AhlI ACTAGT 2 cut(s) 923, 1187
Alw21I GWGCWC 1 cut(s) 30
Alw26I GTCTC 2 cut(s) 264, 1064
Alw44I GTGCAC 1 cut(s) 26
AoxI GGCC 1 cut(s) 1251
ApaLI GTGCAC 1 cut(s) 26
ApeKI GCWGC 6 cut(s) 13, 1568, 1601, 1646, 1712, 1715
ApoI RAATTY 6 cut(s) 193, 301, 386, 511, 961, 1467
ArsI GACNNNNNNTTYG 2 cut(s) 444, 476
AsiGI ACCGGT 1 cut(s) 83
AspLEI GCGC 1 cut(s) 1592
AspS9I GGNCC 3 cut(s) 1061, 1252, 1612
AsuHPI GGTGA 5 cut(s) 73, 293, 740, 1154, 1414
AvaII GGWCC 2 cut(s) 1061, 1612
AxyI CCTNAGG 1 cut(s) 125
BaeGI GKGCMC 1 cut(s) 30
BarI GAAGNNNNNNTAC 2 cut(s) 1025, 1057
BbsI GAAGAC 2 cut(s) 373, 846
Bbv12I GWGCWC 1 cut(s) 30
BbvI GCAGC 5 cut(s) 1580, 1613, 1658, 1699, 1702
BceAI ACGGC 1 cut(s) 1546
BcgI CGANNNNNNTGC 2 cut(s) 154, 188
BclI TGATCA 1 cut(s) 943
BcoDI GTCTC 2 cut(s) 264, 1064
BcuI ACTAGT 2 cut(s) 923, 1187
BfaI CTAG 6 cut(s) 77, 336, 465, 924, 1052, 1188
BfmI CTRYAG 1 cut(s) 1716
BfoI RGCGCY 1 cut(s) 1593
BfrI CTTAAG 1 cut(s) 323
BisI GCNGC 7 cut(s) 14, 1569, 1602, 1644, 1647, 1713, 1716
BlsI GCNGC 7 cut(s) 15, 1570, 1603, 1645, 1648, 1714, 1717
Bme18I GGWCC 2 cut(s) 1061, 1612
BmeRI GACNNNNNGTC 1 cut(s) 688
BmgT120I GGNCC 3 cut(s) 1061, 1252, 1612
BmiI GGNNCC 3 cut(s) 148, 1011, 1613
BmsI GCATC 7 cut(s) 323, 567, 712, 939, 1312, 1514, 1548
BoxI GACNNNNGTC 1 cut(s) 1076
BpiI GAAGAC 2 cut(s) 373, 846
Bpu10I CCTNAGC 1 cut(s) 1886
BsaJI CCNNGG 2 cut(s) 1306, 1425
BsaWI WCCGGW 1 cut(s) 83
BsaXI ACNNNNNCTCC 2 cut(s) 638, 668
Bsc4I CCNNNNNNNGG 6 cut(s) 204, 987, 1261, 1312, 1431, 1876
Bse118I RCCGGY 2 cut(s) 83, 725
Bse1I ACTGG 2 cut(s) 1635, 1881
Bse21I CCTNAGG 1 cut(s) 125
Bse3DI GCAATG 2 cut(s) 768, 1627
BseDI CCNNGG 2 cut(s) 1306, 1425
BseLI CCNNNNNNNGG 6 cut(s) 204, 987, 1261, 1312, 1431, 1876
BseMI GCAATG 2 cut(s) 768, 1627
BseMII CTCAG 5 cut(s) 58, 139, 573, 1385, 1543
BseNI ACTGG 2 cut(s) 1635, 1881
BseRI GAGGAG 2 cut(s) 113, 1355
BseSI GKGCMC 1 cut(s) 30
BseXI GCAGC 5 cut(s) 1580, 1613, 1658, 1699, 1702
BsgI GTGCAG 1 cut(s) 1627
BshFI GGCC 1 cut(s) 1253
BshTI ACCGGT 1 cut(s) 83
BsiHKAI GWGCWC 1 cut(s) 30
BsiSI CCGG 2 cut(s) 84, 726
BslFI GGGAC 4 cut(s) 85, 650, 796, 1167
BslI CCNNNNNNNGG 6 cut(s) 204, 987, 1261, 1312, 1431, 1876
BsmAI GTCTC 2 cut(s) 264, 1064
BsmFI GGGAC 4 cut(s) 85, 650, 796, 1167
BsnI GGCC 1 cut(s) 1253
Bsp1286I GDGCHC 1 cut(s) 30
Bsp1407I TGTACA 2 cut(s) 1032, 1234
Bsp143I GATC 1 cut(s) 943
Bsp19I CCATGG 1 cut(s) 1306
BspACI CCGC 5 cut(s) 163, 422, 644, 1521, 1644
BspANI GGCC 1 cut(s) 1253
BspCNI CTCAG 5 cut(s) 57, 138, 574, 1386, 1542
BspLI GGNNCC 3 cut(s) 148, 1011, 1613
BspMAI CTGCAG 1 cut(s) 1720
BspTI CTTAAG 1 cut(s) 323
BsrDI GCAATG 2 cut(s) 768, 1627
BsrFI RCCGGY 2 cut(s) 83, 725
BsrGI TGTACA 2 cut(s) 1032, 1234
BsrI ACTGG 2 cut(s) 1635, 1881
BssAI RCCGGY 2 cut(s) 83, 725
BssECI CCNNGG 2 cut(s) 1306, 1425
BssMI GATC 1 cut(s) 943
BssT1I CCWWGG 1 cut(s) 1306
Bst4CI ACNGT 1 cut(s) 595
Bst6I CTCTTC 1 cut(s) 1343
BstAFI CTTAAG 1 cut(s) 323
BstAUI TGTACA 2 cut(s) 1032, 1234
BstC8I GCNNGC 4 cut(s) 163, 167, 1099, 1606
BstDEI CTNAG 7 cut(s) 44, 125, 582, 1385, 1394, 1529, 1886
BstDSI CCRYGG 1 cut(s) 1306
BstH2I RGCGCY 1 cut(s) 1593
BstHHI GCGC 1 cut(s) 1592
BstKTI GATC 1 cut(s) 946
BstMAI GTCTC 2 cut(s) 264, 1064
BstMBI GATC 1 cut(s) 943
BstMWI GCNNNNNNNGC 3 cut(s) 1577, 1598, 1640
BstNSI RCATGY 3 cut(s) 230, 1204, 1497
BstPAI GACNNNNGTC 1 cut(s) 1076
BstSFI CTRYAG 1 cut(s) 1716
BstSLI GKGCMC 1 cut(s) 30
BstV1I GCAGC 5 cut(s) 1580, 1613, 1658, 1699, 1702
BstV2I GAAGAC 2 cut(s) 373, 846
BstXI CCANNNNNNTGG 2 cut(s) 278, 685
Bsu36I CCTNAGG 1 cut(s) 125
BsuRI GGCC 1 cut(s) 1253
BtgI CCRYGG 1 cut(s) 1306
BtgZI GCGATG 1 cut(s) 1601
BtsIMutI CAGTG 1 cut(s) 50
Cac8I GCNNGC 4 cut(s) 163, 167, 1099, 1606
CfoI GCGC 1 cut(s) 1592
Cfr10I RCCGGY 2 cut(s) 83, 725
Cfr13I GGNCC 3 cut(s) 1061, 1252, 1612
Csp6I GTAC 9 cut(s) 133, 715, 1033, 1122, 1204, 1235, 1438, 1540, 1874
CspAI ACCGGT 1 cut(s) 83
CviQI GTAC 9 cut(s) 133, 715, 1033, 1122, 1204, 1235, 1438, 1540, 1874
DdeI CTNAG 7 cut(s) 44, 125, 582, 1385, 1394, 1529, 1886
DpnI GATC 1 cut(s) 945
DpnII GATC 1 cut(s) 943
DraI TTTAAA 1 cut(s) 1444
DriI GACNNNNNGTC 1 cut(s) 688
Eam1104I CTCTTC 1 cut(s) 1343
Eam1105I GACNNNNNGTC 1 cut(s) 688
EarI CTCTTC 1 cut(s) 1343
EciI GGCGGA 2 cut(s) 659, 1536
Eco130I CCWWGG 1 cut(s) 1306
Eco32I GATATC 1 cut(s) 826
Eco47I GGWCC 2 cut(s) 1061, 1612
Eco57I CTGAAG 2 cut(s) 1560, 1656
Eco81I CCTNAGG 1 cut(s) 125
EcoRI GAATTC 2 cut(s) 511, 1467
EcoRV GATATC 1 cut(s) 826
EcoT14I CCWWGG 1 cut(s) 1306
EcoT22I ATGCAT 2 cut(s) 279, 1495
ErhI CCWWGG 1 cut(s) 1306
FaqI GGGAC 4 cut(s) 85, 650, 796, 1167
FauI CCCGC 1 cut(s) 170
FauNDI CATATG 1 cut(s) 1376
FbaI TGATCA 1 cut(s) 943
FblI GTMKAC 1 cut(s) 977
Fnu4HI GCNGC 7 cut(s) 14, 1569, 1602, 1644, 1647, 1713, 1716
Fsp4HI GCNGC 7 cut(s) 14, 1569, 1602, 1644, 1647, 1713, 1716
FspBI CTAG 6 cut(s) 77, 336, 465, 924, 1052, 1188
GlaI GCGC 1 cut(s) 1591
GluI GCNGC 7 cut(s) 14, 1569, 1602, 1644, 1647, 1713, 1716
HaeII RGCGCY 1 cut(s) 1593
HaeIII GGCC 1 cut(s) 1253
HapII CCGG 2 cut(s) 84, 726
HhaI GCGC 1 cut(s) 1592
Hin6I GCGC 1 cut(s) 1590
HinP1I GCGC 1 cut(s) 1590
HincII GTYRAC 2 cut(s) 1504, 1921
HindII GTYRAC 2 cut(s) 1504, 1921
HindIII AAGCTT 2 cut(s) 1544, 1901
HinfI GANTC 9 cut(s) 4, 217, 235, 284, 393, 790, 1086, 1130, 1853
HpaII CCGG 2 cut(s) 84, 726
HphI GGTGA 5 cut(s) 73, 293, 740, 1154, 1414
Hpy166II GTNNAC 6 cut(s) 28, 717, 882, 978, 1504, 1921
Hpy188I TCNGA 7 cut(s) 47, 403, 795, 948, 1395, 1532, 1858
Hpy188III TCNNGA 5 cut(s) 232, 353, 1319, 1660, 1953
Hpy8I GTNNAC 6 cut(s) 28, 717, 882, 978, 1504, 1921
HpyAV CCTTC 4 cut(s) 1349, 1485, 1517, 1584
HpyCH4III ACNGT 1 cut(s) 595
HpyF10VI GCNNNNNNNGC 3 cut(s) 1577, 1598, 1640
HpyF3I CTNAG 7 cut(s) 44, 125, 582, 1385, 1394, 1529, 1886
HspAI GCGC 1 cut(s) 1590
Ksp22I TGATCA 1 cut(s) 943
Kzo9I GATC 1 cut(s) 943
LmnI GCTCC 8 cut(s) 126, 146, 562, 933, 1009, 1048, 1218, 1576
Lsp1109I GCAGC 5 cut(s) 1580, 1613, 1658, 1699, 1702
LweI GCATC 7 cut(s) 323, 567, 712, 939, 1312, 1514, 1548
MaeI CTAG 6 cut(s) 77, 336, 465, 924, 1052, 1188
MaeIII GTNAC 5 cut(s) 79, 1183, 1403, 1420, 1842
MalI GATC 1 cut(s) 945
MboI GATC 1 cut(s) 943
MboII GAAGA 6 cut(s) 373, 838, 851, 970, 1360, 1904
MhlI GDGCHC 1 cut(s) 30
MlyI GAGTC 1 cut(s) 293
MmeI TCCRAC 2 cut(s) 1039, 1651
Mph1103I ATGCAT 2 cut(s) 279, 1495
MseI TTAA 2 cut(s) 324, 1443
MslI CAYNNNNRTG 2 cut(s) 225, 1620
MspA1I CMGCKG 1 cut(s) 1580
MspCI CTTAAG 1 cut(s) 323
MspI CCGG 2 cut(s) 84, 726
MwoI GCNNNNNNNGC 3 cut(s) 1577, 1598, 1640
NcoI CCATGG 1 cut(s) 1306
NdeI CATATG 1 cut(s) 1376
NdeII GATC 1 cut(s) 943
NlaIV GGNNCC 3 cut(s) 148, 1011, 1613
NmeAIII GCCGAG 1 cut(s) 1073
NmuCI GTSAC 4 cut(s) 79, 1183, 1420, 1842
NsiI ATGCAT 2 cut(s) 279, 1495
NspI RCATGY 3 cut(s) 230, 1204, 1497
PciI ACATGT 1 cut(s) 1200
PcsI WCGNNNNNNNCGW 1 cut(s) 95
PfeI GAWTC 8 cut(s) 4, 217, 235, 393, 790, 1086, 1130, 1853
PflMI CCANNNNNTGG 1 cut(s) 1312
PinAI ACCGGT 1 cut(s) 83
PkrI GCNGC 7 cut(s) 15, 1570, 1603, 1645, 1648, 1714, 1717
PleI GAGTC 1 cut(s) 292
PpsI GAGTC 1 cut(s) 292
PscI ACATGT 1 cut(s) 1200
PshAI GACNNNNGTC 1 cut(s) 1076
PspN4I GGNNCC 3 cut(s) 148, 1011, 1613
PspPI GGNCC 3 cut(s) 1061, 1252, 1612
PstI CTGCAG 1 cut(s) 1720
PvuII CAGCTG 1 cut(s) 1580
RsaI GTAC 9 cut(s) 134, 716, 1034, 1123, 1205, 1236, 1439, 1541, 1875
RsaNI GTAC 9 cut(s) 133, 715, 1033, 1122, 1204, 1235, 1438, 1540, 1874
RseI CAYNNNNRTG 2 cut(s) 225, 1620
SaqAI TTAA 2 cut(s) 324, 1443
SatI GCNGC 7 cut(s) 14, 1569, 1602, 1644, 1647, 1713, 1716
Sau3AI GATC 1 cut(s) 943
Sau96I GGNCC 3 cut(s) 1061, 1252, 1612
SchI GAGTC 1 cut(s) 293
SduI GDGCHC 1 cut(s) 30
SfaNI GCATC 7 cut(s) 323, 567, 712, 939, 1312, 1514, 1548
SfcI CTRYAG 1 cut(s) 1716
SinI GGWCC 2 cut(s) 1061, 1612
SmiMI CAYNNNNRTG 2 cut(s) 225, 1620
SmlI CTYRAG 1 cut(s) 323
SmoI CTYRAG 1 cut(s) 323
SpeI ACTAGT 2 cut(s) 923, 1187
SsiI CCGC 5 cut(s) 163, 422, 644, 1521, 1644
SspI AATATT 3 cut(s) 853, 919, 1242
SspMI CTAG 6 cut(s) 77, 336, 465, 924, 1052, 1188
StyI CCWWGG 1 cut(s) 1306
TaaI ACNGT 1 cut(s) 595
TaqI TCGA 6 cut(s) 153, 174, 231, 515, 1000, 1790
TatI WGTACW 4 cut(s) 132, 1032, 1234, 1873
TauI GCSGC 1 cut(s) 1646
TfiI GAWTC 8 cut(s) 4, 217, 235, 393, 790, 1086, 1130, 1853
Tru1I TTAA 2 cut(s) 324, 1443
Tru9I TTAA 2 cut(s) 324, 1443
TscAI CASTG 1 cut(s) 57
TseFI GTSAC 4 cut(s) 79, 1183, 1420, 1842
TseI GCWGC 6 cut(s) 13, 1568, 1601, 1646, 1712, 1715
Tsp45I GTSAC 4 cut(s) 79, 1183, 1420, 1842
TspGWI ACGGA 3 cut(s) 277, 307, 761
TspRI CASTG 1 cut(s) 57
Van91I CCANNNNNTGG 1 cut(s) 1312
Vha464I CTTAAG 1 cut(s) 323
VneI GTGCAC 1 cut(s) 26
VpaK11BI GGWCC 2 cut(s) 1061, 1612
XapI RAATTY 6 cut(s) 193, 301, 386, 511, 961, 1467
XceI RCATGY 3 cut(s) 230, 1204, 1497
XcmI CCANNNNNNNNNTGG 1 cut(s) 1309
XmiI GTMKAC 1 cut(s) 977
XspI CTAG 6 cut(s) 77, 336, 465, 924, 1052, 1188
Zsp2I ATGCAT 2 cut(s) 279, 1495
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.