MD09G1004300.v1.1

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr09
OG0013293
Physical Location & Seq
Forward (+)
364695 .. 366289
1595 bp
Loading structure...
UTR
Exon/CDS
Intron
MD09G1004300.v1.1.491

Sequence Viewer

Length: 1482 bp
ATGTCGCCTCCTGGAACTCCGTCATTGCCGACTTGGCCCGCAGCAGCGACTCCCTCGAAGCCCTCCGGGCATTTTCTGTCGGCTTGTTCTCGCGTATCGAGTAAGGGACTTGCCCAAAGTGTTCATGGGTTGGTGGTGAAGAGAGGTTTCGATGGGGATTTATGGGTAGGGAATACTTTGATGGATGCATATGCCAGATGCGGCGAGCTCGGTCTTGTTAGAAAGGTGTTTGATGGAATGTCTCAAAAGGATTTGGTTTCTTGGAACTCCATGATTGCAACTTATGGGCAGAGTGGATTATCTTCAGAGGCATGGCAAGTCTTCTATGGGATGACAAAGGATGGTGACATCCGCTACAATGCGGTGACATTGTCTGCTTTGTTATTAGCTTGTGCGCATGCTGGGCCTCTGTTAGTTGGGAAGTCTATACATGATCAGGTTCTGAAAAAGGGCTTGGAAGAGAATGTGATAGTGTCTACCTCTACTATCCACATGTACTGCAAATGTGGGAGAGTTGACTTGGCAAGAAAGGCATTTGATTGCATGAAGGAGAAGAATGTTAGGACATGGACCGCCATGATTGCAGGTTATGGAATGCACGGCCGAGCCAAAGAAGCATTGGAGGTCTTCTATAAGATGATAAGAGAAGGTGTGAAACCAAATTACATAACATTTGTGTCACTTCTAAATGCTTGCAGCCATGCTGGTCTATTAGAAGAAGGTTGGTATTGGTTTAATAACATGAGCCACGAATACAGTGTAGAACCTGGAATTGAGCACTATGGGTGCATGGTTGATCTTCTTGGACGTTCCGGTGAACTTAACAAAGCTTATGATTTAATAAAGGGAATGAGGATTGGGCCAGATTGTGTAGTCTGGGGTTCATTTCTTGGGCCTTGCAGGGTACACAAAAATGTGACATTTGCAGAGATTTCTGCGAGGAAACTGTTTGAGCTCGACCCTCATAATTGTGGGTACTACATCTTGCTTTCAAATATATATGCCGATGCTGGGAGATGGGAAGATGTTGAGAGGATGAGAATACTGATGAAGAATCGTGGGTTGGTTAAACCTCCTGGATTCAGTTTGGTTGAACTGAGAGGTATTGTGCATTTATTTTTGGTTGAAGACAGAGAGCATCCTCAGCACGAGAAGATTTATGAGTATCTGGAAAACCTGACAATCAAGCTGCAAGAAGTTGGCTATGCACCCAATATCAGTTCAGTTCTTCATGATGTTGATGAGGAAGAGAAGGAAATGGTCCTAAGAGTACATAGTGAGAAGCTGGCTGTTGCCTTCGGAATCATGAATTCTGTACCTGGTGCAACGATTCAGATAATCAAGAATCTCCGAGTTTGTGCCGATTGTCATACTGTTATTAAGTTGATTACAAAGGTTGTTGATCGGGAAATTGTGGTCAGAGATTCAAAGCGGTTTCATCACTTCAGGGATGGGTTGTGTTCTTGTGGAGATTATTGGTGA

Protein Analysis

494

Amino Acids

55.2

Weight (kDa)

7.57

Isoelectric Point (pI)

37.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 84 - 133 5e-06 PPR repeat family
PPR_2 PF13041 185 - 233 6.7e-12 PPR repeat family
PPR_3 PF13812 186 - 232 1.6e-07 Pentatricopeptide repeat domain
PPR PF01535 189 - 218 8.4e-09 PPR repeat
E_motif PF20431 303 - 365 4.2e-21 E motif
DYW_deaminase PF14432 401 - 493 2.4e-43 DYW family of nucleic acid deaminases
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0013293)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G26782
fragaria_vesca FvH4_6g54200 FvH4_6g54200 FvH4_6g54200
malus_domestica MD09G1004300.v1.1 MD17G1007800.v1.1
prunus_persica Prupe.3G312400_v2.0.a1
pyrus_communis pycom111g00310 pycom17g00330
rosa_chinensis RchiOBHm_Chr2g0176381
rosa_laevigata RLG00000022408
rosa_multiflora Rmu_co8497233.1_g000001 Rmu_sc0009140.1_g000003
rosa_roxburghii Rroxscaffold_2G00076480
rosa_rugosa Rorug02G0593800
rosa_samantha Rh2BG683700 Rh2CG646400
rosa_wichuraiana Rw2G055130

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 396
Acc36I ACCTGC 1 cut(s) 575
AccI GTMKAC 1 cut(s) 476
AccII CGCG 1 cut(s) 93
AciI CCGC 6 cut(s) 39, 201, 352, 362, 573, 1432
AcoI YGGCCR 1 cut(s) 601
AcsI RAATTY 1 cut(s) 1309
AcuI CTGAAG 2 cut(s) 288, 1429
AfaI GTAC 5 cut(s) 497, 906, 977, 1272, 1317
AfiI CCNNNNNNNGG 1 cut(s) 1011
AflIII ACRYGT 1 cut(s) 492
AgsI TTSAA 4 cut(s) 993, 1094, 1127, 1428
AjnI CCWGG 4 cut(s) 10, 766, 1075, 1318
AjuI GAANNNNNNNTTGG 4 cut(s) 437, 469, 1046, 1078
AluBI AGCT 6 cut(s) 208, 389, 830, 955, 1189, 1285
AluI AGCT 6 cut(s) 208, 389, 830, 955, 1189, 1285
Alw21I GWGCWC 3 cut(s) 210, 780, 957
Alw26I GTCTC 1 cut(s) 246
AlwNI CAGNNNCTG 1 cut(s) 442
AoxI GGCC 5 cut(s) 35, 404, 601, 860, 893
ApeKI GCWGC 4 cut(s) 41, 44, 696, 1189
ApoI RAATTY 1 cut(s) 1309
AspLEI GCGC 1 cut(s) 397
AspS9I GGNCC 6 cut(s) 36, 404, 570, 860, 893, 1261
AsuC2I CCSGG 1 cut(s) 67
AsuHPI GGTGA 4 cut(s) 148, 356, 376, 827
AvaII GGWCC 2 cut(s) 570, 1261
BanII GRGCYC 2 cut(s) 210, 957
BauI CACGAG 1 cut(s) 1148
BbsI GAAGAC 3 cut(s) 313, 619, 1134
Bbv12I GWGCWC 3 cut(s) 210, 780, 957
BbvCI CCTCAGC 1 cut(s) 1143
BbvI GCAGC 4 cut(s) 53, 56, 708, 1176
BccI CCATC 6 cut(s) 146, 175, 227, 335, 1011, 1445
BceAI ACGGC 1 cut(s) 616
BciT130I CCWGG 4 cut(s) 12, 768, 1077, 1320
BclI TGATCA 1 cut(s) 433
BcnI CCSGG 1 cut(s) 67
BcoDI GTCTC 1 cut(s) 246
BfuAI ACCTGC 1 cut(s) 575
BglI GCCNNNNNGGC 2 cut(s) 34, 67
BisI GCNGC 5 cut(s) 42, 45, 202, 697, 1190
BlsI GCNGC 5 cut(s) 43, 46, 203, 698, 1191
Bme1390I CCNGG 5 cut(s) 12, 67, 768, 1077, 1320
Bme18I GGWCC 2 cut(s) 570, 1261
BmgT120I GGNCC 6 cut(s) 36, 404, 570, 860, 893, 1261
BmrFI CCNGG 5 cut(s) 12, 67, 768, 1077, 1320
BmsI GCATC 4 cut(s) 175, 188, 997, 1147
BpiI GAAGAC 3 cut(s) 313, 619, 1134
Bpu10I CCTNAGC 1 cut(s) 1143
BpuMI CCSGG 1 cut(s) 67
BsaWI WCCGGW 1 cut(s) 812
Bsc4I CCNNNNNNNGG 1 cut(s) 1011
Bse3DI GCAATG 1 cut(s) 23
BseBI CCWGG 4 cut(s) 12, 768, 1077, 1320
BseGI GGATG 7 cut(s) 190, 336, 346, 348, 1041, 1138, 1456
BseLI CCNNNNNNNGG 1 cut(s) 1011
BseMI GCAATG 1 cut(s) 23
BseMII CTCAG 2 cut(s) 1088, 1157
BseX3I CGGCCG 1 cut(s) 601
BseXI GCAGC 4 cut(s) 53, 56, 708, 1176
BseYI CCCAGC 2 cut(s) 401, 1010
Bsh1236I CGCG 1 cut(s) 93
Bsh1285I CGRYCG 1 cut(s) 604
BshFI GGCC 5 cut(s) 37, 406, 603, 862, 895
BsiEI CGRYCG 1 cut(s) 604
BsiHKAI GWGCWC 3 cut(s) 210, 780, 957
BsiSI CCGG 2 cut(s) 66, 813
BslFI GGGAC 1 cut(s) 120
BslI CCNNNNNNNGG 1 cut(s) 1011
BsmAI GTCTC 1 cut(s) 246
BsmFI GGGAC 1 cut(s) 120
BsmI GAATGC 1 cut(s) 600
BsnI GGCC 5 cut(s) 37, 406, 603, 862, 895
Bsp1286I GDGCHC 3 cut(s) 210, 780, 957
Bsp143I GATC 3 cut(s) 433, 796, 1402
BspACI CCGC 6 cut(s) 39, 201, 352, 362, 573, 1432
BspANI GGCC 5 cut(s) 37, 406, 603, 862, 895
BspCNI CTCAG 2 cut(s) 1089, 1156
BspFNI CGCG 1 cut(s) 93
BspHI TCATGA 2 cut(s) 1231, 1305
BspMI ACCTGC 1 cut(s) 575
BsrDI GCAATG 1 cut(s) 23
BssMI GATC 3 cut(s) 433, 796, 1402
BssSI CACGAG 1 cut(s) 1148
Bst2BI CACGAG 1 cut(s) 1148
Bst2UI CCWGG 4 cut(s) 12, 768, 1077, 1320
Bst4CI ACNGT 3 cut(s) 758, 948, 1375
Bst6I CTCTTC 3 cut(s) 134, 453, 1242
BstC8I GCNNGC 5 cut(s) 39, 206, 399, 694, 1287
BstDEI CTNAG 3 cut(s) 1097, 1143, 1265
BstF5I GGATG 7 cut(s) 190, 336, 346, 348, 1041, 1138, 1456
BstFNI CGCG 1 cut(s) 93
BstHHI GCGC 1 cut(s) 397
BstKTI GATC 3 cut(s) 436, 799, 1405
BstMAI GTCTC 1 cut(s) 246
BstMBI GATC 3 cut(s) 433, 796, 1402
BstMCI CGRYCG 1 cut(s) 604
BstMWI GCNNNNNNNGC 7 cut(s) 34, 67, 403, 530, 581, 614, 1144
BstNI CCWGG 4 cut(s) 12, 768, 1077, 1320
BstNSI RCATGY 2 cut(s) 401, 496
BstSCI CCNGG 5 cut(s) 10, 65, 766, 1075, 1318
BstUI CGCG 1 cut(s) 93
BstV1I GCAGC 4 cut(s) 53, 56, 708, 1176
BstV2I GAAGAC 3 cut(s) 313, 619, 1134
BstZI CGGCCG 1 cut(s) 601
BsuRI GGCC 5 cut(s) 37, 406, 603, 862, 895
BtsCI GGATG 7 cut(s) 190, 336, 346, 348, 1041, 1138, 1456
BtsIMutI CAGTG 1 cut(s) 763
BveI ACCTGC 1 cut(s) 575
Cac8I GCNNGC 5 cut(s) 39, 206, 399, 694, 1287
CaiI CAGNNNCTG 1 cut(s) 442
CciI TCATGA 2 cut(s) 1231, 1305
CfoI GCGC 1 cut(s) 397
Cfr13I GGNCC 6 cut(s) 36, 404, 570, 860, 893, 1261
CsiI ACCWGGT 1 cut(s) 1318
Csp6I GTAC 5 cut(s) 496, 905, 976, 1271, 1316
CviQI GTAC 5 cut(s) 496, 905, 976, 1271, 1316
DdeI CTNAG 3 cut(s) 1097, 1143, 1265
DpnI GATC 3 cut(s) 435, 798, 1404
DpnII GATC 3 cut(s) 433, 796, 1402
EaeI YGGCCR 1 cut(s) 601
EagI CGGCCG 1 cut(s) 601
Eam1104I CTCTTC 3 cut(s) 134, 453, 1242
EarI CTCTTC 3 cut(s) 134, 453, 1242
Ecl136II GAGCTC 2 cut(s) 208, 955
EclXI CGGCCG 1 cut(s) 601
Eco24I GRGCYC 2 cut(s) 210, 957
Eco47I GGWCC 2 cut(s) 570, 1261
Eco52I CGGCCG 1 cut(s) 601
Eco53kI GAGCTC 2 cut(s) 208, 955
Eco57I CTGAAG 2 cut(s) 288, 1429
EcoICRI GAGCTC 2 cut(s) 208, 955
EcoRI GAATTC 1 cut(s) 1309
EcoRII CCWGG 4 cut(s) 10, 766, 1075, 1318
EcoT22I ATGCAT 1 cut(s) 190
EcoT38I GRGCYC 2 cut(s) 210, 957
FaqI GGGAC 1 cut(s) 120
FauI CCCGC 1 cut(s) 46
FauNDI CATATG 1 cut(s) 190
FbaI TGATCA 1 cut(s) 433
FblI GTMKAC 1 cut(s) 476
Fnu4HI GCNGC 5 cut(s) 42, 45, 202, 697, 1190
FokI GGATG 7 cut(s) 197, 335, 343, 353, 1048, 1125, 1463
FriOI GRGCYC 2 cut(s) 210, 957
Fsp4HI GCNGC 5 cut(s) 42, 45, 202, 697, 1190
FspAI RTGCGCAY 1 cut(s) 396
FspI TGCGCA 1 cut(s) 396
GlaI GCGC 1 cut(s) 396
GluI GCNGC 5 cut(s) 42, 45, 202, 697, 1190
GsaI CCCAGC 2 cut(s) 405, 1014
HaeIII GGCC 5 cut(s) 37, 406, 603, 862, 895
HapII CCGG 2 cut(s) 66, 813
HhaI GCGC 1 cut(s) 397
Hin6I GCGC 1 cut(s) 395
HinP1I GCGC 1 cut(s) 395
HincII GTYRAC 1 cut(s) 517
HindII GTYRAC 1 cut(s) 517
HindIII AAGCTT 1 cut(s) 828
HinfI GANTC 7 cut(s) 49, 1054, 1080, 1302, 1330, 1345, 1424
HpaII CCGG 2 cut(s) 66, 813
HphI GGTGA 4 cut(s) 148, 356, 376, 827
Hpy166II GTNNAC 4 cut(s) 477, 517, 818, 907
Hpy188I TCNGA 6 cut(s) 307, 444, 1301, 1335, 1352, 1421
Hpy188III TCNNGA 5 cut(s) 1169, 1232, 1306, 1342, 1406
Hpy8I GTNNAC 4 cut(s) 477, 517, 818, 907
HpyAV CCTTC 5 cut(s) 541, 641, 713, 1246, 1306
HpyCH4III ACNGT 3 cut(s) 758, 948, 1375
HpyCH4IV ACGT 1 cut(s) 808
HpyF10VI GCNNNNNNNGC 7 cut(s) 34, 67, 403, 530, 581, 614, 1144
HpyF3I CTNAG 3 cut(s) 1097, 1143, 1265
HpySE526I ACGT 1 cut(s) 808
HspAI GCGC 1 cut(s) 395
Ksp22I TGATCA 1 cut(s) 433
Kzo9I GATC 3 cut(s) 433, 796, 1402
Lsp1109I GCAGC 4 cut(s) 53, 56, 708, 1176
LweI GCATC 4 cut(s) 175, 188, 997, 1147
MabI ACCWGGT 1 cut(s) 1318
MaeII ACGT 1 cut(s) 808
MaeIII GTNAC 4 cut(s) 344, 364, 678, 916
MalI GATC 3 cut(s) 435, 798, 1404
MboI GATC 3 cut(s) 433, 796, 1402
MhlI GDGCHC 3 cut(s) 210, 780, 957
MluCI AATT 5 cut(s) 661, 771, 967, 1309, 1410
MlyI GAGTC 1 cut(s) 43
Mph1103I ATGCAT 1 cut(s) 190
MseI TTAA 5 cut(s) 735, 822, 839, 1068, 1380
MslI CAYNNNNRTG 2 cut(s) 912, 969
MspI CCGG 2 cut(s) 66, 813
MspR9I CCNGG 5 cut(s) 12, 67, 768, 1077, 1320
Mva1269I GAATGC 1 cut(s) 600
MvaI CCWGG 4 cut(s) 12, 768, 1077, 1320
MvnI CGCG 1 cut(s) 93
MwoI GCNNNNNNNGC 7 cut(s) 34, 67, 403, 530, 581, 614, 1144
NciI CCSGG 1 cut(s) 67
NdeI CATATG 1 cut(s) 190
NdeII GATC 3 cut(s) 433, 796, 1402
NmeAIII GCCGAG 1 cut(s) 629
NmuCI GTSAC 4 cut(s) 344, 364, 678, 916
NsbI TGCGCA 1 cut(s) 396
NsiI ATGCAT 1 cut(s) 190
NspI RCATGY 2 cut(s) 401, 496
PaeI GCATGC 1 cut(s) 401
PagI TCATGA 2 cut(s) 1231, 1305
PciI ACATGT 1 cut(s) 492
PctI GAATGC 1 cut(s) 600
PfeI GAWTC 6 cut(s) 1054, 1080, 1302, 1330, 1345, 1424
PflFI GACNNNGTC 1 cut(s) 370
PfoI TCCNGGA 2 cut(s) 10, 1075
PkrI GCNGC 5 cut(s) 43, 46, 203, 698, 1191
PleI GAGTC 1 cut(s) 43
PpsI GAGTC 1 cut(s) 43
PscI ACATGT 1 cut(s) 492
Psp124BI GAGCTC 2 cut(s) 210, 957
Psp6I CCWGG 4 cut(s) 10, 766, 1075, 1318
PspFI CCCAGC 2 cut(s) 401, 1010
PspGI CCWGG 4 cut(s) 10, 766, 1075, 1318
PspPI GGNCC 6 cut(s) 36, 404, 570, 860, 893, 1261
PstNI CAGNNNCTG 1 cut(s) 442
PsyI GACNNNGTC 1 cut(s) 370
RsaI GTAC 5 cut(s) 497, 906, 977, 1272, 1317
RsaNI GTAC 5 cut(s) 496, 905, 976, 1271, 1316
RseI CAYNNNNRTG 2 cut(s) 912, 969
SacI GAGCTC 2 cut(s) 210, 957
SaqAI TTAA 5 cut(s) 735, 822, 839, 1068, 1380
SatI GCNGC 5 cut(s) 42, 45, 202, 697, 1190
Sau3AI GATC 3 cut(s) 433, 796, 1402
Sau96I GGNCC 6 cut(s) 36, 404, 570, 860, 893, 1261
SchI GAGTC 1 cut(s) 43
ScrFI CCNGG 5 cut(s) 12, 67, 768, 1077, 1320
SduI GDGCHC 3 cut(s) 210, 780, 957
SexAI ACCWGGT 1 cut(s) 1318
SfaNI GCATC 4 cut(s) 175, 188, 997, 1147
SinI GGWCC 2 cut(s) 570, 1261
SmiMI CAYNNNNRTG 2 cut(s) 912, 969
SphI GCATGC 1 cut(s) 401
Sse9I AATT 5 cut(s) 661, 771, 967, 1309, 1410
SsiI CCGC 6 cut(s) 39, 201, 352, 362, 573, 1432
SstI GAGCTC 2 cut(s) 210, 957
StyD4I CCNGG 5 cut(s) 10, 65, 766, 1075, 1318
TaaI ACNGT 3 cut(s) 758, 948, 1375
TaiI ACGT 1 cut(s) 811
TaqI TCGA 4 cut(s) 56, 98, 150, 957
TaqII GACCGA 1 cut(s) 200
TasI AATT 5 cut(s) 661, 771, 967, 1309, 1410
TatI WGTACW 2 cut(s) 495, 1270
TauI GCSGC 1 cut(s) 204
TfiI GAWTC 6 cut(s) 1054, 1080, 1302, 1330, 1345, 1424
Tru1I TTAA 5 cut(s) 735, 822, 839, 1068, 1380
Tru9I TTAA 5 cut(s) 735, 822, 839, 1068, 1380
TscAI CASTG 1 cut(s) 763
TseFI GTSAC 4 cut(s) 344, 364, 678, 916
TseI GCWGC 4 cut(s) 41, 44, 696, 1189
Tsp45I GTSAC 4 cut(s) 344, 364, 678, 916
TspDTI ATGAA 7 cut(s) 113, 560, 873, 1064, 1220, 1322, 1427
TspGWI ACGGA 1 cut(s) 9
TspRI CASTG 1 cut(s) 763
Tth111I GACNNNGTC 1 cut(s) 370
VpaK11BI GGWCC 2 cut(s) 570, 1261
XapI RAATTY 1 cut(s) 1309
XceI RCATGY 2 cut(s) 401, 496
XcmI CCANNNNNNNNNTGG 2 cut(s) 122, 616
XmiI GTMKAC 1 cut(s) 476
Zsp2I ATGCAT 1 cut(s) 190
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.