MD04G1224500.v1.1

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr04
OG0016670
Physical Location & Seq
Reverse (-)
30446643 .. 30447567
925 bp
Loading structure...
UTR
Exon/CDS
Intron
MD04G1224500.v1.1.491

Sequence Viewer

Length: 849 bp
ATGCAAACTCATCCAGCAGTCTCCACCTTATCAAAAAGCACAAACCTTCATGCCCATTTGGTATTCCAACCAAACTTGTTCCTCCTAAACACTTTGATCAGATGCTCTCACCCCAAAGATTCAGTTCTTGTTTTCGCCAATTGGGTTTCTAAATCCACCTTAGTTTTTGACGATTCGACTTACATATTTGTTCTTGGAGCTTGTGCTAGATTGCCTTCAGTTCCAACGTTGTTAGTAGGCAGACAGATACATGGTCTGACTGTGAAACATGACGTCTGTTTGATCAATAGCGCTTTGTCGGTTTTCAAGCGAATGATAGAGAAGAATGTCTTGACTTGGACAGCAAGGGCGACCGGGCTAGCCATTCACGGTAAGGGCAATGAAGCATTGGAGCTTTTGGAGGTAATGGAGGGTTCTGGAATAAAACCCAATGCAGTGACTTTAACCGGCTTGCTTTCAGCTTGTTGTCATTCGGGCCTCCTTGAAGAAGGCCTCTATTTGTTCCATTTGATGGAGAGCAAGTTTGGTGTCTCGCCTCGGATGCAACACTATGGCTGCATTGTTGACATGCTTAGCCGCGGAGGGCACTTGAAAGAAGCCTATGAGTTTATAGTACGGATGCCAGTTGAACCTGATGCCGTCTTGTGGAGGAGTTTGCTAAGTGCTTGCAACCTCCATGGGGATGTTGCAGTGGGAGACAAGGTGGGGACGAAGCTGCTCGGCATACAATCAGAACAGAGTTCTGCAGAATCGACTCTAAAGAGCGAGGACTATGTTGCGTTGTCGAACATTTATGCATCTGCTGAAAGGGAGGATGTGGAGATGGTAAAGACAGGAAATGAAGGTTAA

Protein Analysis

283

Amino Acids

30.76

Weight (kDa)

6.3

Isoelectric Point (pI)

33.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 109 - 157 6.3e-09 PPR repeat family
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: OG0016670)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G18970
fragaria_vesca FvH4_6g02930
malus_domestica MD04G1224500.v1.1 MD12G1241200.v1.1
prunus_persica Prupe.6G343200_v2.0.a1
rosa_chinensis RchiOBHm_Chr3g0451131
rosa_laevigata RLG00000025687
rosa_multiflora Rmu_sc0039775.1_g000001 Rmu_ssc0000461.1_g000009
rosa_roxburghii Rroxscaffold_6G00428600
rosa_rugosa Rorug02G0631800
rosa_samantha Rh3AG034600 Rh3DG034600
rosa_wichuraiana Rw3G002520

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 276
AccB7I CCANNNNNTGG 1 cut(s) 511
AccII CGCG 1 cut(s) 579
AciI CCGC 2 cut(s) 577, 579
AclI AACGTT 1 cut(s) 227
AcuI CTGAAG 1 cut(s) 201
AcyI GRCGYC 1 cut(s) 273
AfaI GTAC 1 cut(s) 615
AfeI AGCGCT 1 cut(s) 292
AfiI CCNNNNNNNGG 3 cut(s) 511, 645, 679
AgsI TTSAA 4 cut(s) 307, 485, 592, 629
AluBI AGCT 4 cut(s) 200, 394, 461, 715
AluI AGCT 4 cut(s) 200, 394, 461, 715
Alw26I GTCTC 3 cut(s) 25, 535, 690
Aor51HI AGCGCT 1 cut(s) 292
AoxI GGCC 2 cut(s) 475, 490
ApeKI GCWGC 2 cut(s) 555, 715
AspLEI GCGC 1 cut(s) 293
AspS9I GGNCC 1 cut(s) 475
AsuC2I CCSGG 1 cut(s) 355
AsuHPI GGTGA 1 cut(s) 101
AsuNHI GCTAGC 1 cut(s) 358
BaeGI GKGCMC 1 cut(s) 588
BbvI GCAGC 2 cut(s) 542, 702
BccI CCATC 2 cut(s) 505, 817
BceAI ACGGC 1 cut(s) 623
BclI TGATCA 2 cut(s) 96, 282
BcnI CCSGG 1 cut(s) 355
BcoDI GTCTC 3 cut(s) 25, 535, 690
BfaI CTAG 2 cut(s) 207, 359
BfmI CTRYAG 1 cut(s) 744
BfoI RGCGCY 1 cut(s) 294
BisI GCNGC 3 cut(s) 556, 577, 716
BlpI GCTNAGC 1 cut(s) 572
BlsI GCNGC 3 cut(s) 557, 578, 717
Bme1390I CCNGG 1 cut(s) 355
BmgT120I GGNCC 1 cut(s) 475
BmrFI CCNGG 1 cut(s) 355
BmsI GCATC 5 cut(s) 92, 531, 609, 625, 806
BmtI GCTAGC 1 cut(s) 362
Bpu1102I GCTNAGC 1 cut(s) 572
BpuMI CCSGG 1 cut(s) 355
BsaHI GRCGYC 1 cut(s) 273
BsaJI CCNNGG 3 cut(s) 536, 577, 676
BsaXI ACNNNNNCTCC 4 cut(s) 506, 536, 687, 717
Bsc4I CCNNNNNNNGG 3 cut(s) 511, 645, 679
Bse118I RCCGGY 1 cut(s) 446
Bse1I ACTGG 1 cut(s) 623
Bse3DI GCAATG 1 cut(s) 385
BseDI CCNNGG 3 cut(s) 536, 577, 676
BseGI GGATG 5 cut(s) 10, 546, 624, 688, 820
BseLI CCNNNNNNNGG 3 cut(s) 511, 645, 679
BseMI GCAATG 1 cut(s) 385
BseNI ACTGG 1 cut(s) 623
BseRI GAGGAG 1 cut(s) 664
BseSI GKGCMC 1 cut(s) 588
BseXI GCAGC 2 cut(s) 542, 702
Bsh1236I CGCG 1 cut(s) 579
Bsh1285I CGRYCG 1 cut(s) 354
BshFI GGCC 2 cut(s) 477, 492
BsiEI CGRYCG 1 cut(s) 354
BsiSI CCGG 2 cut(s) 354, 447
BslFI GGGAC 1 cut(s) 721
BslI CCNNNNNNNGG 3 cut(s) 511, 645, 679
BsmAI GTCTC 3 cut(s) 25, 535, 690
BsmFI GGGAC 1 cut(s) 721
BsnI GGCC 2 cut(s) 477, 492
Bsp1286I GDGCHC 1 cut(s) 588
Bsp143I GATC 2 cut(s) 96, 282
Bsp1720I GCTNAGC 1 cut(s) 572
Bsp19I CCATGG 1 cut(s) 676
BspACI CCGC 2 cut(s) 577, 579
BspANI GGCC 2 cut(s) 477, 492
BspFNI CGCG 1 cut(s) 579
BspMAI CTGCAG 1 cut(s) 748
BspOI GCTAGC 1 cut(s) 362
BsrDI GCAATG 1 cut(s) 385
BsrFI RCCGGY 1 cut(s) 446
BsrI ACTGG 1 cut(s) 623
BssAI RCCGGY 1 cut(s) 446
BssECI CCNNGG 3 cut(s) 536, 577, 676
BssMI GATC 2 cut(s) 96, 282
BssNI GRCGYC 1 cut(s) 273
BssT1I CCWWGG 1 cut(s) 676
Bst4CI ACNGT 2 cut(s) 262, 371
BstACI GRCGYC 1 cut(s) 273
BstC8I GCNNGC 3 cut(s) 360, 452, 667
BstDEI CTNAG 3 cut(s) 160, 572, 659
BstDSI CCRYGG 2 cut(s) 577, 676
BstF5I GGATG 5 cut(s) 10, 546, 624, 688, 820
BstFNI CGCG 1 cut(s) 579
BstH2I RGCGCY 1 cut(s) 294
BstHHI GCGC 1 cut(s) 293
BstKTI GATC 2 cut(s) 99, 285
BstMAI GTCTC 3 cut(s) 25, 535, 690
BstMBI GATC 2 cut(s) 96, 282
BstMCI CGRYCG 1 cut(s) 354
BstMWI GCNNNNNNNGC 1 cut(s) 541
BstNSI RCATGY 1 cut(s) 571
BstSCI CCNGG 1 cut(s) 353
BstSFI CTRYAG 1 cut(s) 744
BstSLI GKGCMC 1 cut(s) 588
BstUI CGCG 1 cut(s) 579
BstV1I GCAGC 2 cut(s) 542, 702
BsuRI GGCC 2 cut(s) 477, 492
BtgI CCRYGG 2 cut(s) 577, 676
BtsCI GGATG 5 cut(s) 10, 546, 624, 688, 820
BtsI GCAGTG 2 cut(s) 441, 696
BtsIMutI CAGTG 2 cut(s) 441, 696
Cac8I GCNNGC 3 cut(s) 360, 452, 667
CfoI GCGC 1 cut(s) 293
Cfr10I RCCGGY 1 cut(s) 446
Cfr13I GGNCC 1 cut(s) 475
Cfr42I CCGCGG 1 cut(s) 580
Csp6I GTAC 1 cut(s) 614
CviAII CATG 5 cut(s) 50, 251, 269, 568, 677
CviQI GTAC 1 cut(s) 614
DdeI CTNAG 3 cut(s) 160, 572, 659
DpnI GATC 2 cut(s) 98, 284
DpnII GATC 2 cut(s) 96, 282
Eco130I CCWWGG 1 cut(s) 676
Eco147I AGGCCT 1 cut(s) 492
Eco47III AGCGCT 1 cut(s) 292
Eco57I CTGAAG 1 cut(s) 201
EcoT14I CCWWGG 1 cut(s) 676
EcoT22I ATGCAT 1 cut(s) 799
ErhI CCWWGG 1 cut(s) 676
FaeI CATG 5 cut(s) 53, 254, 272, 571, 680
FalI AAGNNNNNCTT 2 cut(s) 314, 346
FaqI GGGAC 1 cut(s) 721
FatI CATG 5 cut(s) 49, 250, 268, 567, 676
FbaI TGATCA 2 cut(s) 96, 282
Fnu4HI GCNGC 3 cut(s) 556, 577, 716
FokI GGATG 4 cut(s) 553, 631, 695, 827
Fsp4HI GCNGC 3 cut(s) 556, 577, 716
FspBI CTAG 2 cut(s) 207, 359
GlaI GCGC 1 cut(s) 292
GluI GCNGC 3 cut(s) 556, 577, 716
HaeII RGCGCY 1 cut(s) 294
HaeIII GGCC 2 cut(s) 477, 492
HapII CCGG 2 cut(s) 354, 447
HhaI GCGC 1 cut(s) 293
Hin1I GRCGYC 1 cut(s) 273
Hin1II CATG 5 cut(s) 53, 254, 272, 571, 680
Hin6I GCGC 1 cut(s) 291
HinP1I GCGC 1 cut(s) 291
HincII GTYRAC 1 cut(s) 565
HindII GTYRAC 1 cut(s) 565
HinfI GANTC 4 cut(s) 119, 173, 749, 754
HpaII CCGG 2 cut(s) 354, 447
HphI GGTGA 1 cut(s) 101
Hpy166II GTNNAC 1 cut(s) 565
Hpy188I TCNGA 4 cut(s) 101, 258, 540, 733
Hpy188III TCNNGA 2 cut(s) 331, 417
Hpy8I GTNNAC 1 cut(s) 565
HpyAV CCTTC 4 cut(s) 56, 225, 482, 836
HpyCH4III ACNGT 2 cut(s) 262, 371
HpyCH4IV ACGT 2 cut(s) 227, 273
HpyCH4V TGCA 8 cut(s) 4, 434, 544, 558, 669, 689, 746, 797
HpyF10VI GCNNNNNNNGC 1 cut(s) 541
HpyF3I CTNAG 3 cut(s) 160, 572, 659
HpySE526I ACGT 2 cut(s) 227, 273
Hsp92I GRCGYC 1 cut(s) 273
Hsp92II CATG 5 cut(s) 53, 254, 272, 571, 680
HspAI GCGC 1 cut(s) 291
Ksp22I TGATCA 2 cut(s) 96, 282
KspI CCGCGG 1 cut(s) 580
Kzo9I GATC 2 cut(s) 96, 282
LmnI GCTCC 2 cut(s) 197, 391
LpnPI CCDG 7 cut(s) 27, 367, 402, 460, 636, 645, 819
Lsp1109I GCAGC 2 cut(s) 542, 702
LweI GCATC 5 cut(s) 92, 531, 609, 625, 806
MaeI CTAG 2 cut(s) 207, 359
MaeII ACGT 2 cut(s) 227, 273
MaeIII GTNAC 1 cut(s) 436
MalI GATC 2 cut(s) 98, 284
MboI GATC 2 cut(s) 96, 282
MboII GAAGA 2 cut(s) 334, 497
MfeI CAATTG 1 cut(s) 139
MhlI GDGCHC 1 cut(s) 588
MluCI AATT 1 cut(s) 139
MlyI GAGTC 1 cut(s) 748
MmeI TCCRAC 2 cut(s) 91, 248
Mph1103I ATGCAT 1 cut(s) 799
MseI TTAA 2 cut(s) 443, 847
MslI CAYNNNNRTG 1 cut(s) 681
MspA1I CMGCKG 1 cut(s) 579
MspI CCGG 2 cut(s) 354, 447
MspR9I CCNGG 1 cut(s) 355
MunI CAATTG 1 cut(s) 139
MvnI CGCG 1 cut(s) 579
MwoI GCNNNNNNNGC 1 cut(s) 541
NciI CCSGG 1 cut(s) 355
NcoI CCATGG 1 cut(s) 676
NdeII GATC 2 cut(s) 96, 282
NheI GCTAGC 1 cut(s) 358
NlaIII CATG 5 cut(s) 53, 254, 272, 571, 680
NmeAIII GCCGAG 1 cut(s) 699
NmuCI GTSAC 1 cut(s) 436
NsiI ATGCAT 1 cut(s) 799
NspI RCATGY 1 cut(s) 571
PceI AGGCCT 1 cut(s) 492
PfeI GAWTC 3 cut(s) 119, 173, 749
PflMI CCANNNNNTGG 1 cut(s) 511
PkrI GCNGC 3 cut(s) 557, 578, 717
PleI GAGTC 1 cut(s) 748
PpsI GAGTC 1 cut(s) 748
Psp1406I AACGTT 1 cut(s) 227
PspPI GGNCC 1 cut(s) 475
PstI CTGCAG 1 cut(s) 748
RsaI GTAC 1 cut(s) 615
RsaNI GTAC 1 cut(s) 614
RseI CAYNNNNRTG 1 cut(s) 681
SacII CCGCGG 1 cut(s) 580
SaqAI TTAA 2 cut(s) 443, 847
SatI GCNGC 3 cut(s) 556, 577, 716
Sau3AI GATC 2 cut(s) 96, 282
Sau96I GGNCC 1 cut(s) 475
SchI GAGTC 1 cut(s) 748
ScrFI CCNGG 1 cut(s) 355
SduI GDGCHC 1 cut(s) 588
SfaNI GCATC 5 cut(s) 92, 531, 609, 625, 806
SfcI CTRYAG 1 cut(s) 744
Sfr303I CCGCGG 1 cut(s) 580
SgrBI CCGCGG 1 cut(s) 580
SmiMI CAYNNNNRTG 1 cut(s) 681
Sse9I AATT 1 cut(s) 139
SseBI AGGCCT 1 cut(s) 492
SsiI CCGC 2 cut(s) 577, 579
SspMI CTAG 2 cut(s) 207, 359
StuI AGGCCT 1 cut(s) 492
StyD4I CCNGG 1 cut(s) 353
StyI CCWWGG 1 cut(s) 676
TaaI ACNGT 2 cut(s) 262, 371
TaiI ACGT 2 cut(s) 230, 276
TaqI TCGA 3 cut(s) 176, 752, 785
TasI AATT 1 cut(s) 139
TauI GCSGC 1 cut(s) 579
TfiI GAWTC 3 cut(s) 119, 173, 749
Tru1I TTAA 2 cut(s) 443, 847
Tru9I TTAA 2 cut(s) 443, 847
TscAI CASTG 2 cut(s) 441, 696
TseFI GTSAC 1 cut(s) 436
TseI GCWGC 2 cut(s) 555, 715
Tsp45I GTSAC 1 cut(s) 436
TspDTI ATGAA 2 cut(s) 38, 396
TspGWI ACGGA 1 cut(s) 631
TspRI CASTG 2 cut(s) 441, 696
Van91I CCANNNNNTGG 1 cut(s) 511
XceI RCATGY 1 cut(s) 571
XspI CTAG 2 cut(s) 207, 359
ZraI GACGTC 1 cut(s) 274
Zsp2I ATGCAT 1 cut(s) 799
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.