MD05G1062000.v1.1

Pentatricopeptide repeat-containing protein At4g21065-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr05
OG0022426
Physical Location & Seq
Forward (+)
10913474 .. 10915279
1806 bp
Loading structure...
UTR
Exon/CDS
Intron
MD05G1062000.v1.1.491

Sequence Viewer

Length: 1806 bp
ATGAGACAGAGACAGCAAAATCTACTAGAAGGGAGCTGCCATGCACGAGTGGAGCAGCATTCCAGATTCTCCCTCAAAGAAATGGAGATCACCACCATGTCTGAAGCCATCCAACTCCACGCCCAAATTCTGAAAACAGGCAGCACCCACCACAACCACAACCAGAACCTCTCGAAGCTCTTCACCTTCTCCGCTCTCTCCCCCTCCGGCGACCTCTCCTACGCCCGTCTCATACTAGACTCCTTCCCTACCCCCAACTCTTACCACTACAACACCATGATCCGAGCCTACTCTCAAAGCTCCGACCCCATTCAGGCCCTCCATCTCTTTCTACCCATGGTTGCCAAACCGACCCGCCATGCACCCCGCCCCGACAAGTTCACCTACCCCTTCCTCCTGAAGTCATGTGCCCGTTTGAGACTGACCCGTGAAGGAAAACAGCTTCATGGGGTGATAGTCAAGTCGGGTCTCGGGTTGGATCGGTATATCCAGCACTCGTTGATTCATATGTACTCTTTGGGTGGGGAGTCGGGTCTTGCTTATAAGGTGTTCGAGAGAATGTCTGACAGAGATGTGGTGTCCTGGACTTCAATGATTGATGGGTTTGTTGACGATGGGAGGCCCGTGGAGGCGATAAGGTTGTTTGAGAAGATGGTGGATGATGGGGTTGAGGTGAATGATGCAACGGTGGTGTCAGTTTTGAGAGCGTGTGCGGAGACAGGGGCGTTGGGCGTAGGGAGGAGAGTGCATGGGGTTGCTGAGGATAGAGGGATTGGTTTGAAGCCTAATGTTAGTACTGCCCTAATTGATATGTTTGCAAAATGTGGTTGTATACAGAGTGCAAGGCGGGTTTTCGATAACGTTGTGGATAAAGACGTTTTTGCATGGACGGCTATGATATCCGGCCTTGCAAGCCATGGCCATTGTCAAGATGCTATTGAATTGTTCTGTAAAATGCAAGATTTTGGTGTGAAACCTGATGGGAGGACTATGACTGCAGTTTTATCGGCATGTAGGAATGCACGTTGGGTTGAGGATGGTTATGCGTACATGACAAGTATGCAGAAGGATTATGGACTTAGGCCTACAATTCAACACTATGGATGCATGGTAGACCTCCTTGCTAGAGCGGGTCATTTGAAAGACGCTGAAGAGTTCATCAGGAAAATGCCCATGGAACCTGATGCAGTTTTGTGCAGAAACATGATATGGGCATGCAAAGTGCATAACGATGCCGATCGAGCGGAACGCTTGATAAAATATCTTCAACAGCTAAAGACGAATTCAAATGATAGCGGAAGTTTTGTACTTATTGGCAATGTGTATGCATCAGCAGGCAAATGGCACGACAAAGCAAAGGTTAGAGATTTGATGAAGCAAAAAGGACTAGTAAAGCCACCAGGGTTTAGTAGGATTGAGGTTGATGGGGAAATCCACGAATTTGCTGTCGGAGATTCAGGACACCCTGAAGCCGAAACAATTTACAGAAAGTTGGAAGAAATAGAAGATTATTTGAGAAAAGAAGGGTACAGTCCCAAACTTTCAGAGGTTTTGCTTGAAATCGACGATGAGGAGAAAGCTTTTCAATTGAGTCACCACAGTGAGAAGCTTGCTCTTGCCTTTGGTCTGATTAGAACACGTCCGGGGTCTGAAATTCGGATCGTGAAGAACTTACGGTCTTGTGAGAACTGCCATGCTGTTATGAAACTAATTTCAAAGGTGTACCGACGAGAGATAATAATGAGGGATCGAATACGATTCCACCATTTCAAGAACGGAGATTGCTCTTGCAAGGATTACTGGTAA
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

602

Amino Acids

68.11

Weight (kDa)

8.48

Isoelectric Point (pI)

41.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 190 - 238 3e-11 PPR repeat family
PPR PF01535 193 - 223 5.6e-08 PPR repeat
PPR_2 PF13041 291 - 338 3.4e-11 PPR repeat family
PPR PF01535 295 - 324 2.4e-07 PPR repeat
E_motif PF20431 409 - 473 9.8e-15 E motif
DYW_deaminase PF14432 509 - 601 9.9e-39 DYW family of nucleic acid deaminases
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: OG0022426)

Species Orthologous Gene IDs
malus_domestica MD05G1062000.v1.1
prunus_persica Prupe.8G091500_v2.0.a1 Prupe.8G091500_v2.0.a1
pyrus_communis pycom05g05340

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 543
AccBSI CCGCTC 3 cut(s) 194, 1130, 1244
AccI GTMKAC 2 cut(s) 832, 1113
AciI CCGC 8 cut(s) 192, 355, 367, 713, 847, 1130, 1244, 1296
AclI AACGTT 1 cut(s) 861
AclWI GGATC 4 cut(s) 274, 486, 1667, 1755
AcoI YGGCCR 1 cut(s) 919
AcsI RAATTY 4 cut(s) 126, 1282, 1439, 1653
AcuI CTGAAG 4 cut(s) 123, 419, 1170, 1488
AfaI GTAC 6 cut(s) 512, 796, 1049, 1308, 1529, 1724
AfiI CCNNNNNNNGG 1 cut(s) 313
AflIII ACRYGT 1 cut(s) 1637
AhlI ACTAGT 1 cut(s) 1387
AjiI CACGTC 1 cut(s) 1640
AjnI CCWGG 2 cut(s) 581, 1399
AleI CACNNNNGTG 1 cut(s) 1599
AluBI AGCT 7 cut(s) 36, 178, 300, 442, 1273, 1580, 1609
AluI AGCT 7 cut(s) 36, 178, 300, 442, 1273, 1580, 1609
Alw26I GTCTC 5 cut(s) 4, 233, 412, 473, 710
AlwI GGATC 4 cut(s) 274, 486, 1667, 1755
Ama87I CYCGRG 1 cut(s) 470
AoxI GGCC 5 cut(s) 315, 620, 904, 919, 1082
ApeKI GCWGC 3 cut(s) 36, 55, 141
ApoI RAATTY 4 cut(s) 126, 1282, 1439, 1653
ArsI GACNNNNNNTTYG 2 cut(s) 1431, 1463
Asp700I GAANNNNTTC 1 cut(s) 179
AspS9I GGNCC 2 cut(s) 316, 621
AsuC2I CCSGG 1 cut(s) 1644
AsuHPI GGTGA 6 cut(s) 82, 175, 373, 463, 685, 1586
AvaI CYCGRG 1 cut(s) 470
BaeGI GKGCMC 1 cut(s) 412
BalI TGGCCA 1 cut(s) 921
BauI CACGAG 1 cut(s) 45
BbvCI CCTCAGC 1 cut(s) 759
BbvI GCAGC 3 cut(s) 23, 67, 153
BccI CCATC 9 cut(s) 116, 330, 593, 608, 646, 656, 974, 1031, 1418
BceAI ACGGC 1 cut(s) 906
BcgI CGANNNNNNTGC 2 cut(s) 987, 1021
BciT130I CCWGG 2 cut(s) 583, 1401
BcnI CCSGG 1 cut(s) 1644
BcoDI GTCTC 5 cut(s) 4, 233, 412, 473, 710
BcuI ACTAGT 1 cut(s) 1387
BfaI CTAG 4 cut(s) 26, 236, 1125, 1388
BfmI CTRYAG 1 cut(s) 996
BisI GCNGC 3 cut(s) 37, 56, 142
BlsI GCNGC 3 cut(s) 38, 57, 143
BmcAI AGTACT 1 cut(s) 796
Bme1390I CCNGG 3 cut(s) 583, 1401, 1644
BmeT110I CYCGRG 1 cut(s) 470
BmgBI CACGTC 1 cut(s) 1640
BmgT120I GGNCC 2 cut(s) 316, 621
BmiI GGNNCC 1 cut(s) 1179
BmrFI CCNGG 3 cut(s) 583, 1401, 1644
BmsI GCATC 6 cut(s) 670, 922, 1094, 1174, 1222, 1337
Bpu10I CCTNAGC 1 cut(s) 759
BpuMI CCSGG 1 cut(s) 1644
BsaBI GATNNNNATC 1 cut(s) 1236
BsaI GGTCTC 1 cut(s) 473
BsaJI CCNNGG 6 cut(s) 336, 624, 916, 1173, 1400, 1643
Bsc4I CCNNNNNNNGG 1 cut(s) 313
Bse1I ACTGG 1 cut(s) 1805
Bse3DI GCAATG 1 cut(s) 1324
Bse8I GATNNNNATC 1 cut(s) 1236
BseBI CCWGG 2 cut(s) 583, 1401
BseDI CCNNGG 6 cut(s) 336, 624, 916, 1173, 1400, 1643
BseGI GGATG 4 cut(s) 108, 664, 1042, 1109
BseJI GATNNNNATC 1 cut(s) 1236
BseLI CCNNNNNNNGG 1 cut(s) 313
BseMI GCAATG 1 cut(s) 1324
BseMII CTCAG 1 cut(s) 750
BseNI ACTGG 1 cut(s) 1805
BseRI GAGGAG 2 cut(s) 754, 1586
BseSI GKGCMC 1 cut(s) 412
BseXI GCAGC 3 cut(s) 23, 67, 153
BsgI GTGCAG 1 cut(s) 1216
Bsh1285I CGRYCG 1 cut(s) 1240
BshFI GGCC 5 cut(s) 317, 622, 906, 921, 1084
BsiEI CGRYCG 1 cut(s) 1240
BsiHKCI CYCGRG 1 cut(s) 470
BsiSI CCGG 3 cut(s) 207, 903, 1643
BslFI GGGAC 1 cut(s) 1518
BslI CCNNNNNNNGG 1 cut(s) 313
BsmAI GTCTC 5 cut(s) 4, 233, 412, 473, 710
BsmBI CGTCTC 1 cut(s) 233
BsmFI GGGAC 1 cut(s) 1518
BsmI GAATGC 2 cut(s) 58, 1024
BsnI GGCC 5 cut(s) 317, 622, 906, 921, 1084
Bso31I GGTCTC 1 cut(s) 473
BsoBI CYCGRG 1 cut(s) 470
Bsp1286I GDGCHC 1 cut(s) 412
Bsp143I GATC 6 cut(s) 87, 279, 478, 1237, 1659, 1747
Bsp19I CCATGG 3 cut(s) 336, 916, 1173
BspACI CCGC 8 cut(s) 192, 355, 367, 713, 847, 1130, 1244, 1296
BspANI GGCC 5 cut(s) 317, 622, 906, 921, 1084
BspCNI CTCAG 1 cut(s) 751
BspLI GGNNCC 1 cut(s) 1179
BspMAI CTGCAG 1 cut(s) 1000
BspPI GGATC 4 cut(s) 274, 486, 1667, 1755
BspQI GCTCTTC 1 cut(s) 185
BspTNI GGTCTC 1 cut(s) 473
BsrBI CCGCTC 3 cut(s) 194, 1130, 1244
BsrDI GCAATG 1 cut(s) 1324
BsrI ACTGG 1 cut(s) 1805
BssECI CCNNGG 6 cut(s) 336, 624, 916, 1173, 1400, 1643
BssMI GATC 6 cut(s) 87, 279, 478, 1237, 1659, 1747
BssNAI GTATAC 1 cut(s) 833
BssSI CACGAG 1 cut(s) 45
BssT1I CCWWGG 3 cut(s) 336, 916, 1173
Bst1107I GTATAC 1 cut(s) 833
Bst2BI CACGAG 1 cut(s) 45
Bst2UI CCWGG 2 cut(s) 583, 1401
Bst4CI ACNGT 4 cut(s) 688, 1532, 1601, 1677
Bst6I CTCTTC 2 cut(s) 185, 1146
BstC8I GCNNGC 4 cut(s) 913, 1216, 1336, 1611
BstDEI CTNAG 2 cut(s) 759, 1079
BstDSI CCRYGG 4 cut(s) 336, 624, 916, 1173
BstF5I GGATG 4 cut(s) 108, 664, 1042, 1109
BstKTI GATC 6 cut(s) 90, 282, 481, 1240, 1662, 1750
BstMAI GTCTC 5 cut(s) 4, 233, 412, 473, 710
BstMBI GATC 6 cut(s) 87, 279, 478, 1237, 1659, 1747
BstMCI CGRYCG 1 cut(s) 1240
BstMWI GCNNNNNNNGC 3 cut(s) 890, 912, 1241
BstNI CCWGG 2 cut(s) 583, 1401
BstNSI RCATGY 2 cut(s) 1014, 1218
BstSCI CCNGG 3 cut(s) 581, 1399, 1642
BstSFI CTRYAG 1 cut(s) 996
BstSLI GKGCMC 1 cut(s) 412
BstV1I GCAGC 3 cut(s) 23, 67, 153
BstZ17I GTATAC 1 cut(s) 833
BsuRI GGCC 5 cut(s) 317, 622, 906, 921, 1084
BtgI CCRYGG 4 cut(s) 336, 624, 916, 1173
BtrI CACGTC 1 cut(s) 1640
BtsCI GGATG 4 cut(s) 108, 664, 1042, 1109
BtsIMutI CAGTG 1 cut(s) 1606
Cac8I GCNNGC 4 cut(s) 913, 1216, 1336, 1611
Cfr13I GGNCC 2 cut(s) 316, 621
CseI GACGC 1 cut(s) 1154
Csp6I GTAC 6 cut(s) 511, 795, 1048, 1307, 1528, 1723
CviQI GTAC 6 cut(s) 511, 795, 1048, 1307, 1528, 1723
DdeI CTNAG 2 cut(s) 759, 1079
DpnI GATC 6 cut(s) 89, 281, 480, 1239, 1661, 1749
DpnII GATC 6 cut(s) 87, 279, 478, 1237, 1659, 1747
EaeI YGGCCR 1 cut(s) 919
Eam1104I CTCTTC 2 cut(s) 185, 1146
EarI CTCTTC 2 cut(s) 185, 1146
Eco130I CCWWGG 3 cut(s) 336, 916, 1173
Eco147I AGGCCT 1 cut(s) 1084
Eco31I GGTCTC 1 cut(s) 473
Eco32I GATATC 1 cut(s) 900
Eco57I CTGAAG 4 cut(s) 123, 419, 1170, 1488
Eco88I CYCGRG 1 cut(s) 470
EcoO109I RGGNCCY 1 cut(s) 316
EcoRI GAATTC 1 cut(s) 1282
EcoRII CCWGG 2 cut(s) 581, 1399
EcoRV GATATC 1 cut(s) 900
EcoT14I CCWWGG 3 cut(s) 336, 916, 1173
EcoT22I ATGCAT 2 cut(s) 1109, 1330
ErhI CCWWGG 3 cut(s) 336, 916, 1173
Esp3I CGTCTC 1 cut(s) 233
FaqI GGGAC 1 cut(s) 1518
FauI CCCGC 4 cut(s) 362, 374, 840, 1123
FauNDI CATATG 1 cut(s) 507
FblI GTMKAC 2 cut(s) 832, 1113
Fnu4HI GCNGC 3 cut(s) 37, 56, 142
FokI GGATG 4 cut(s) 95, 671, 1049, 1116
Fsp4HI GCNGC 3 cut(s) 37, 56, 142
FspBI CTAG 4 cut(s) 26, 236, 1125, 1388
GluI GCNGC 3 cut(s) 37, 56, 142
HaeIII GGCC 5 cut(s) 317, 622, 906, 921, 1084
HapII CCGG 3 cut(s) 207, 903, 1643
HgaI GACGC 1 cut(s) 1154
HincII GTYRAC 1 cut(s) 610
HindII GTYRAC 1 cut(s) 610
HindIII AAGCTT 2 cut(s) 1578, 1607
HinfI GANTC 7 cut(s) 66, 239, 502, 527, 1454, 1591, 1758
HpaII CCGG 3 cut(s) 207, 903, 1643
HphI GGTGA 6 cut(s) 82, 175, 373, 463, 685, 1586
Hpy166II GTNNAC 5 cut(s) 381, 610, 833, 1114, 1723
Hpy188III TCNNGA 9 cut(s) 63, 172, 397, 553, 929, 1162, 1458, 1663, 1771
Hpy8I GTNNAC 5 cut(s) 381, 610, 833, 1114, 1723
Hpy99I CGWCG 2 cut(s) 1568, 1731
HpyAV CCTTC 7 cut(s) 23, 196, 253, 400, 425, 1060, 1517
HpyCH4III ACNGT 4 cut(s) 688, 1532, 1601, 1677
HpyCH4IV ACGT 4 cut(s) 861, 876, 1024, 1639
HpyF10VI GCNNNNNNNGC 3 cut(s) 890, 912, 1241
HpyF3I CTNAG 2 cut(s) 759, 1079
HpySE526I ACGT 4 cut(s) 861, 876, 1024, 1639
Kzo9I GATC 6 cut(s) 87, 279, 478, 1237, 1659, 1747
LguI GCTCTTC 1 cut(s) 185
LmnI GCTCC 3 cut(s) 33, 52, 305
Lsp1109I GCAGC 3 cut(s) 23, 67, 153
LweI GCATC 6 cut(s) 670, 922, 1094, 1174, 1222, 1337
MaeI CTAG 4 cut(s) 26, 236, 1125, 1388
MaeII ACGT 4 cut(s) 861, 876, 1024, 1639
MaeIII GTNAC 1 cut(s) 1592
MalI GATC 6 cut(s) 89, 281, 480, 1239, 1661, 1749
MbiI CCGCTC 3 cut(s) 194, 1130, 1244
MboI GATC 6 cut(s) 87, 279, 478, 1237, 1659, 1747
MboII GAAGA 7 cut(s) 172, 661, 1163, 1256, 1508, 1517, 1678
MfeI CAATTG 1 cut(s) 1586
MhlI GDGCHC 1 cut(s) 412
MlsI TGGCCA 1 cut(s) 921
MluNI TGGCCA 1 cut(s) 921
MlyI GAGTC 3 cut(s) 233, 536, 1600
MmeI TCCRAC 5 cut(s) 136, 327, 456, 1429, 1473
Mox20I TGGCCA 1 cut(s) 921
Mph1103I ATGCAT 2 cut(s) 1109, 1330
MroXI GAANNNNTTC 1 cut(s) 179
MscI TGGCCA 1 cut(s) 921
MslI CAYNNNNRTG 3 cut(s) 95, 1230, 1599
Msp20I TGGCCA 1 cut(s) 921
MspI CCGG 3 cut(s) 207, 903, 1643
MspR9I CCNGG 3 cut(s) 583, 1401, 1644
MunI CAATTG 1 cut(s) 1586
Mva1269I GAATGC 2 cut(s) 58, 1024
MvaI CCWGG 2 cut(s) 583, 1401
MwoI GCNNNNNNNGC 3 cut(s) 890, 912, 1241
NciI CCSGG 1 cut(s) 1644
NcoI CCATGG 3 cut(s) 336, 916, 1173
NdeI CATATG 1 cut(s) 507
NdeII GATC 6 cut(s) 87, 279, 478, 1237, 1659, 1747
NlaIV GGNNCC 1 cut(s) 1179
NmuCI GTSAC 1 cut(s) 1592
NsiI ATGCAT 2 cut(s) 1109, 1330
NspI RCATGY 2 cut(s) 1014, 1218
OliI CACNNNNGTG 1 cut(s) 1599
PaeI GCATGC 1 cut(s) 1218
PceI AGGCCT 1 cut(s) 1084
PciSI GCTCTTC 1 cut(s) 185
PctI GAATGC 2 cut(s) 58, 1024
PdmI GAANNNNTTC 1 cut(s) 179
PfeI GAWTC 4 cut(s) 66, 502, 1454, 1758
PfoI TCCNGGA 1 cut(s) 581
PkrI GCNGC 3 cut(s) 38, 57, 143
Ple19I CGATCG 1 cut(s) 1240
PleI GAGTC 3 cut(s) 233, 535, 1599
PpsI GAGTC 3 cut(s) 233, 535, 1599
PsiI TTATAA 1 cut(s) 543
Psp1406I AACGTT 1 cut(s) 861
Psp6I CCWGG 2 cut(s) 581, 1399
PspGI CCWGG 2 cut(s) 581, 1399
PspN4I GGNNCC 1 cut(s) 1179
PspPI GGNCC 2 cut(s) 316, 621
PstI CTGCAG 1 cut(s) 1000
PvuI CGATCG 1 cut(s) 1240
RsaI GTAC 6 cut(s) 512, 796, 1049, 1308, 1529, 1724
RsaNI GTAC 6 cut(s) 511, 795, 1048, 1307, 1528, 1723
RseI CAYNNNNRTG 3 cut(s) 95, 1230, 1599
SapI GCTCTTC 1 cut(s) 185
SatI GCNGC 3 cut(s) 37, 56, 142
Sau3AI GATC 6 cut(s) 87, 279, 478, 1237, 1659, 1747
Sau96I GGNCC 2 cut(s) 316, 621
ScaI AGTACT 1 cut(s) 796
SchI GAGTC 3 cut(s) 233, 536, 1600
ScrFI CCNGG 3 cut(s) 583, 1401, 1644
SduI GDGCHC 1 cut(s) 412
SfaNI GCATC 6 cut(s) 670, 922, 1094, 1174, 1222, 1337
SfcI CTRYAG 1 cut(s) 996
SmiMI CAYNNNNRTG 3 cut(s) 95, 1230, 1599
SpeI ACTAGT 1 cut(s) 1387
SphI GCATGC 1 cut(s) 1218
SseBI AGGCCT 1 cut(s) 1084
SsiI CCGC 8 cut(s) 192, 355, 367, 713, 847, 1130, 1244, 1296
SspMI CTAG 4 cut(s) 26, 236, 1125, 1388
StuI AGGCCT 1 cut(s) 1084
StyD4I CCNGG 3 cut(s) 581, 1399, 1642
StyI CCWWGG 3 cut(s) 336, 916, 1173
TaaI ACNGT 4 cut(s) 688, 1532, 1601, 1677
TaiI ACGT 4 cut(s) 864, 879, 1027, 1642
TaqI TCGA 6 cut(s) 173, 552, 855, 1240, 1563, 1750
TatI WGTACW 3 cut(s) 510, 794, 1306
TfiI GAWTC 4 cut(s) 66, 502, 1454, 1758
TscAI CASTG 1 cut(s) 1606
TseFI GTSAC 1 cut(s) 1592
TseI GCWGC 3 cut(s) 36, 55, 141
Tsp45I GTSAC 1 cut(s) 1592
TspDTI ATGAA 5 cut(s) 434, 494, 1147, 1388, 1718
TspGWI ACGGA 1 cut(s) 1791
TspRI CASTG 1 cut(s) 1606
XapI RAATTY 4 cut(s) 126, 1282, 1439, 1653
XceI RCATGY 2 cut(s) 1014, 1218
XmiI GTMKAC 2 cut(s) 832, 1113
XmnI GAANNNNTTC 1 cut(s) 179
XspI CTAG 4 cut(s) 26, 236, 1125, 1388
ZrmI AGTACT 1 cut(s) 796
Zsp2I ATGCAT 2 cut(s) 1109, 1330
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.