MD04G1047000.v1.1

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr04
OG0024410
Physical Location & Seq
Reverse (-)
5454882 .. 5458018
3137 bp
Loading structure...
UTR
Exon/CDS
Intron
MD04G1047000.v1.1.491

Sequence Viewer

Length: 777 bp
ATGAAATCTGCTGTGATGGGTTCATTGGGTTGTTTGAAATTCCACGTTCCTCAACTGGGTTTGAAACAAGATCACCCAGAACTCAACCACCTGCGCTATTTATCCGCAACACCTTCTTCTTCTTCCCGAAAATTCACCACCGTCTGTGGCGGCCTGAGAGGGGGACCGAGAAAGCCTCTATGGAAGTCAAGGGTGCTCTCCACCGAGGCCATTCAGGCAGTTCAGTCTCTGAAGCTTGCCAAATCAACCCCATCGAAACTCGAGGAGGTTTTTGATGCAAGACTCTCCAGGCTCTTGAAAGCTGACTTGTTGGACTCCTTGGCCGAGTTGCACAGACAAAATGAAGTCCAATTAGCACTCAAGGTCTTCAAATTTGTGCGGGAGGAAGTATGGTATAAGCCAGATCTCTCCTTATACTGTAGCATGATCCTACTGCTGGGGAAGAACAAACTGATTGAAATGGCGGAAGAGCTTTTTTCTGGATTGAAGGAAGAAGGCTTAGAACCTGACACAAGGGCATTCACTGAGATGATTGGAGCTTATATACAAGTGGGCATGACGGAAAAGGCAATGAAGACCTATGAATTGATGAAGGCATCAGGCTGTGCCCCAGATAAATTAACGTTTACAATATTGATTAGAAACCTTGAGAAGGCTGGAGAGGAAGATTGGGCGGCTTCTGTCAAGCAAGATTGTGCTGAATATGTAGACTCTCCTGAGAAATTTTTTGAAGAAGTTGAACGGAAACATGGGAGGAGATCACTCAATCTTGTATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00520 ko01100 map00520 map01100
Pfam Domains
Protein Families
PPR PPR_2

Protein Analysis

259

Amino Acids

29.1

Weight (kDa)

8.48

Isoelectric Point (pI)

42.29

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_long PF17177 113 - 239 4.8e-08 Pentacotripeptide-repeat region of PRORP
TPR_24 PF23276 147 - 219 7.7e-06 Fungal tetratrico peptide repeats
PPR_3 PF13812 158 - 214 9e-08 Pentatricopeptide repeat domain
PPR_2 PF13041 169 - 216 3.5e-12 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: OG0024410)

Species Orthologous Gene IDs
malus_domestica MD04G1047000.v1.1
prunus_persica Prupe.1G201600_v2.0.a1
pyrus_communis pycom04g04080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 99
Acc36I ACCTGC 1 cut(s) 99
AccI GTMKAC 1 cut(s) 708
AciI CCGC 5 cut(s) 105, 150, 379, 464, 674
AclI AACGTT 1 cut(s) 623
AclWI GGATC 1 cut(s) 421
AcoI YGGCCR 1 cut(s) 321
AcsI RAATTY 4 cut(s) 38, 131, 371, 722
AcuI CTGAAG 1 cut(s) 251
AfiI CCNNNNNNNGG 4 cut(s) 56, 160, 436, 652
AgsI TTSAA 8 cut(s) 37, 64, 298, 370, 458, 487, 731, 740
AjnI CCWGG 1 cut(s) 287
AluBI AGCT 4 cut(s) 235, 302, 472, 539
AluI AGCT 4 cut(s) 235, 302, 472, 539
Alw21I GWGCWC 1 cut(s) 198
Alw26I GTCTC 1 cut(s) 231
AlwI GGATC 1 cut(s) 421
AlwNI CAGNNNCTG 1 cut(s) 229
Ama87I CYCGRG 1 cut(s) 260
AoxI GGCC 3 cut(s) 151, 207, 321
ApoI RAATTY 4 cut(s) 38, 131, 371, 722
AspLEI GCGC 1 cut(s) 96
AspS9I GGNCC 1 cut(s) 164
AsuHPI GGTGA 2 cut(s) 65, 127
AvaI CYCGRG 1 cut(s) 260
AvaII GGWCC 1 cut(s) 164
BaeGI GKGCMC 1 cut(s) 610
BbsI GAAGAC 2 cut(s) 358, 581
Bbv12I GWGCWC 1 cut(s) 198
BccI CCATC 2 cut(s) 10, 259
BciT130I CCWGG 1 cut(s) 289
BcoDI GTCTC 1 cut(s) 231
BfmI CTRYAG 1 cut(s) 418
BfuAI ACCTGC 1 cut(s) 99
BglI GCCNNNNNGGC 1 cut(s) 215
BglII AGATCT 1 cut(s) 403
BisI GCNGC 2 cut(s) 151, 675
BlsI GCNGC 2 cut(s) 152, 676
Bme1390I CCNGG 1 cut(s) 289
Bme18I GGWCC 1 cut(s) 164
BmeT110I CYCGRG 1 cut(s) 260
BmgT120I GGNCC 1 cut(s) 164
BmiI GGNNCC 1 cut(s) 165
BmrFI CCNGG 1 cut(s) 289
BmrI ACTGGG 1 cut(s) 65
BmsI GCATC 2 cut(s) 265, 605
BmuI ACTGGG 1 cut(s) 65
BpiI GAAGAC 2 cut(s) 358, 581
BplI GAGNNNNNCTC 2 cut(s) 160, 192
BpmI CTGGAG 2 cut(s) 271, 678
BpuEI CTTGAG 2 cut(s) 344, 668
BsaJI CCNNGG 2 cut(s) 204, 318
Bsc4I CCNNNNNNNGG 4 cut(s) 56, 160, 436, 652
Bse1I ACTGG 1 cut(s) 60
Bse3DI GCAATG 1 cut(s) 576
BseBI CCWGG 1 cut(s) 289
BseDI CCNNGG 2 cut(s) 204, 318
BseLI CCNNNNNNNGG 4 cut(s) 56, 160, 436, 652
BseMI GCAATG 1 cut(s) 576
BseMII CTCAG 3 cut(s) 146, 516, 708
BseNI ACTGG 1 cut(s) 60
BseRI GAGGAG 2 cut(s) 278, 769
BseSI GKGCMC 1 cut(s) 610
BseYI CCCAGC 1 cut(s) 436
BshFI GGCC 3 cut(s) 153, 209, 323
BsiHKAI GWGCWC 1 cut(s) 198
BsiHKCI CYCGRG 1 cut(s) 260
BslFI GGGAC 1 cut(s) 177
BslI CCNNNNNNNGG 4 cut(s) 56, 160, 436, 652
BsmAI GTCTC 1 cut(s) 231
BsmFI GGGAC 1 cut(s) 177
BsmI GAATGC 1 cut(s) 518
BsnI GGCC 3 cut(s) 153, 209, 323
BsoBI CYCGRG 1 cut(s) 260
Bsp1286I GDGCHC 2 cut(s) 198, 610
Bsp143I GATC 4 cut(s) 70, 403, 426, 758
BspACI CCGC 5 cut(s) 105, 150, 379, 464, 674
BspANI GGCC 3 cut(s) 153, 209, 323
BspCNI CTCAG 3 cut(s) 147, 517, 709
BspLI GGNNCC 1 cut(s) 165
BspMI ACCTGC 1 cut(s) 99
BspPI GGATC 1 cut(s) 421
BspQI GCTCTTC 1 cut(s) 462
BsrDI GCAATG 1 cut(s) 576
BsrI ACTGG 1 cut(s) 60
BssECI CCNNGG 2 cut(s) 204, 318
BssMI GATC 4 cut(s) 70, 403, 426, 758
BssT1I CCWWGG 1 cut(s) 318
Bst2UI CCWGG 1 cut(s) 289
Bst4CI ACNGT 2 cut(s) 142, 419
Bst6I CTCTTC 1 cut(s) 462
BstC8I GCNNGC 1 cut(s) 237
BstDEI CTNAG 4 cut(s) 155, 499, 525, 717
BstENI CCTNNNNNAGG 1 cut(s) 650
BstHHI GCGC 1 cut(s) 96
BstKTI GATC 4 cut(s) 73, 406, 429, 761
BstMAI GTCTC 1 cut(s) 231
BstMBI GATC 4 cut(s) 70, 403, 426, 758
BstMWI GCNNNNNNNGC 1 cut(s) 215
BstNI CCWGG 1 cut(s) 289
BstSCI CCNGG 1 cut(s) 287
BstSFI CTRYAG 1 cut(s) 418
BstSLI GKGCMC 1 cut(s) 610
BstV2I GAAGAC 2 cut(s) 358, 581
BstX2I RGATCY 1 cut(s) 403
BstYI RGATCY 1 cut(s) 403
BsuRI GGCC 3 cut(s) 153, 209, 323
BtsIMutI CAGTG 1 cut(s) 522
BveI ACCTGC 1 cut(s) 99
Cac8I GCNNGC 1 cut(s) 237
CaiI CAGNNNCTG 1 cut(s) 229
CfoI GCGC 1 cut(s) 96
Cfr13I GGNCC 1 cut(s) 164
CviAII CATG 3 cut(s) 424, 556, 749
DdeI CTNAG 4 cut(s) 155, 499, 525, 717
DpnI GATC 4 cut(s) 72, 405, 428, 760
DpnII GATC 4 cut(s) 70, 403, 426, 758
EaeI YGGCCR 1 cut(s) 321
Eam1104I CTCTTC 1 cut(s) 462
EarI CTCTTC 1 cut(s) 462
EciI GGCGGA 1 cut(s) 479
Eco130I CCWWGG 1 cut(s) 318
Eco47I GGWCC 1 cut(s) 164
Eco57I CTGAAG 1 cut(s) 251
Eco88I CYCGRG 1 cut(s) 260
EcoNI CCTNNNNNAGG 1 cut(s) 650
EcoRII CCWGG 1 cut(s) 287
EcoT14I CCWWGG 1 cut(s) 318
ErhI CCWWGG 1 cut(s) 318
FaeI CATG 3 cut(s) 427, 559, 752
FaqI GGGAC 1 cut(s) 177
FatI CATG 3 cut(s) 423, 555, 748
FauI CCCGC 1 cut(s) 372
FblI GTMKAC 1 cut(s) 708
Fnu4HI GCNGC 2 cut(s) 151, 675
Fsp4HI GCNGC 2 cut(s) 151, 675
GlaI GCGC 1 cut(s) 95
GluI GCNGC 2 cut(s) 151, 675
GsaI CCCAGC 1 cut(s) 440
GsuI CTGGAG 2 cut(s) 271, 678
HaeIII GGCC 3 cut(s) 153, 209, 323
HhaI GCGC 1 cut(s) 96
Hin1II CATG 3 cut(s) 427, 559, 752
Hin6I GCGC 1 cut(s) 94
HinP1I GCGC 1 cut(s) 94
HindIII AAGCTT 1 cut(s) 233
HinfI GANTC 3 cut(s) 282, 314, 710
HphI GGTGA 2 cut(s) 65, 127
Hpy166II GTNNAC 2 cut(s) 627, 709
Hpy188I TCNGA 1 cut(s) 231
Hpy188III TCNNGA 4 cut(s) 126, 295, 480, 716
Hpy8I GTNNAC 2 cut(s) 627, 709
HpyAV CCTTC 5 cut(s) 123, 481, 488, 586, 646
HpyCH4III ACNGT 2 cut(s) 142, 419
HpyCH4IV ACGT 2 cut(s) 45, 623
HpyCH4V TGCA 2 cut(s) 278, 331
HpyF10VI GCNNNNNNNGC 1 cut(s) 215
HpyF3I CTNAG 4 cut(s) 155, 499, 525, 717
HpySE526I ACGT 2 cut(s) 45, 623
Hsp92II CATG 3 cut(s) 427, 559, 752
HspAI GCGC 1 cut(s) 94
Kzo9I GATC 4 cut(s) 70, 403, 426, 758
LguI GCTCTTC 1 cut(s) 462
LmnI GCTCC 1 cut(s) 536
LweI GCATC 2 cut(s) 265, 605
MaeII ACGT 2 cut(s) 45, 623
MalI GATC 4 cut(s) 72, 405, 428, 760
MboI GATC 4 cut(s) 70, 403, 426, 758
MflI RGATCY 1 cut(s) 403
MhlI GDGCHC 2 cut(s) 198, 610
MluCI AATT 7 cut(s) 38, 131, 350, 371, 584, 617, 722
MlyI GAGTC 3 cut(s) 276, 308, 704
MmeI TCCRAC 1 cut(s) 291
MnlI CCTC 9 cut(s) 60, 152, 186, 199, 256, 259, 376, 655, 747
MseI TTAA 1 cut(s) 620
MslI CAYNNNNRTG 1 cut(s) 527
MspR9I CCNGG 1 cut(s) 289
Mva1269I GAATGC 1 cut(s) 518
MvaI CCWGG 1 cut(s) 289
MwoI GCNNNNNNNGC 1 cut(s) 215
NdeII GATC 4 cut(s) 70, 403, 426, 758
NlaIII CATG 3 cut(s) 427, 559, 752
NlaIV GGNNCC 1 cut(s) 165
NmeAIII GCCGAG 1 cut(s) 349
PaeR7I CTCGAG 1 cut(s) 260
PaqCI CACCTGC 1 cut(s) 99
PciSI GCTCTTC 1 cut(s) 462
PctI GAATGC 1 cut(s) 518
PkrI GCNGC 2 cut(s) 152, 676
PleI GAGTC 3 cut(s) 276, 308, 704
PpsI GAGTC 3 cut(s) 276, 308, 704
Psp1406I AACGTT 1 cut(s) 623
Psp6I CCWGG 1 cut(s) 287
PspFI CCCAGC 1 cut(s) 436
PspGI CCWGG 1 cut(s) 287
PspN4I GGNNCC 1 cut(s) 165
PspPI GGNCC 1 cut(s) 164
PspXI VCTCGAGB 1 cut(s) 260
PstNI CAGNNNCTG 1 cut(s) 229
PsuI RGATCY 1 cut(s) 403
RseI CAYNNNNRTG 1 cut(s) 527
SapI GCTCTTC 1 cut(s) 462
SaqAI TTAA 1 cut(s) 620
SatI GCNGC 2 cut(s) 151, 675
Sau3AI GATC 4 cut(s) 70, 403, 426, 758
Sau96I GGNCC 1 cut(s) 164
SchI GAGTC 3 cut(s) 276, 308, 704
ScrFI CCNGG 1 cut(s) 289
SduI GDGCHC 2 cut(s) 198, 610
SfaNI GCATC 2 cut(s) 265, 605
SfcI CTRYAG 1 cut(s) 418
Sfr274I CTCGAG 1 cut(s) 260
SinI GGWCC 1 cut(s) 164
SlaI CTCGAG 1 cut(s) 260
SmiMI CAYNNNNRTG 1 cut(s) 527
SmlI CTYRAG 3 cut(s) 260, 359, 647
SmoI CTYRAG 3 cut(s) 260, 359, 647
Sse9I AATT 7 cut(s) 38, 131, 350, 371, 584, 617, 722
SsiI CCGC 5 cut(s) 105, 150, 379, 464, 674
SspI AATATT 1 cut(s) 633
StyD4I CCNGG 1 cut(s) 287
StyI CCWWGG 1 cut(s) 318
TaaI ACNGT 2 cut(s) 142, 419
TaiI ACGT 2 cut(s) 48, 626
TaqI TCGA 2 cut(s) 254, 261
TaqII GACCGA 1 cut(s) 181
TasI AATT 7 cut(s) 38, 131, 350, 371, 584, 617, 722
TauI GCSGC 2 cut(s) 153, 677
Tru1I TTAA 1 cut(s) 620
Tru9I TTAA 1 cut(s) 620
TscAI CASTG 1 cut(s) 529
TspDTI ATGAA 6 cut(s) 12, 17, 357, 587, 597, 605
TspGWI ACGGA 2 cut(s) 575, 757
TspRI CASTG 1 cut(s) 529
VpaK11BI GGWCC 1 cut(s) 164
XagI CCTNNNNNAGG 1 cut(s) 650
XapI RAATTY 4 cut(s) 38, 131, 371, 722
XhoI CTCGAG 1 cut(s) 260
XmiI GTMKAC 1 cut(s) 708
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.