MD04G1183300.v1.1

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr04
OG0009745
Physical Location & Seq
Forward (+)
27471861 .. 27472877
1017 bp
Loading structure...
UTR
Exon/CDS
Intron
MD04G1183300.v1.1.491

Sequence Viewer

Length: 996 bp
ATGGCAGGCACACTGCTATCTCGGGCCATTCATCTTTTCGCCTCTACTACCACCAAGTCTAATCCTTTTTACTCCGCCGTCTCCTCCCGCCTCATAGCCATAGCCGCCGCCAGCCACTCCAACAAAACCATCTCAGAAAACCATCACAGGAGTTCACTTCTTCCATTTTCACTTAACCCTTTTCGTTTCCATAACACCCTTAGAGGACGGAGCCGTAGCTGCTCCTGCTGCGATTCCACCACAGAAAACCACCGTCGCCATAGCCGCGACGGCGAACCCAGCACCAAAATCAACACCAAGGTTAACTTCTCCCTCCCATCCGACGACGAAGACGATGACCAAACTACGCCAACCGCCTCCGCGAAAGAGATCGACAAGTCGAAGCTCCCTCCACCGTACGACCCTTTCAGCAAGAAGCCCGCCATCGAGGACCCGGAGGACCCAAAGGACTTGCAAGAGGTCTTCCACAAAATGCGGAGCGACGGCCTCACCAACAATGCAGTCAAGATGTTCGACGCATTGTCTAAAGATGGATTGACCCACGAGGCCTTGGAGCTCTTTGCTCAGATTAAGGACAAGGGTCATATGCCTGACGTCGTTTCTCACACCGCCGTCATTGAGGCCTACGCCAATGCCGGAAAGACGAAGGAGGCTTTGAAGGTGTATTTGCGGATGTTGGCCTCGGGGGTTGCCCCGAACACCTACACTTACAGTGTGCTGATCAAGGCGCTTGCAGCCGACCCTGGCAATTTTCTTGGGGATGCTAAGAAATATTTGCTGGATATGATGGGGAAAGGAATGCGGCCCAATGCCGCTACGTATATGGCTGTGTTCGAGGGGTTTGCAAGGCAGGAGAAGGCGGAGGAGGGGAGGTTGTTACTGGAAGAGATGAAAGGCAAGGGGTTTGTGCCGGACGAGAAGGCGGTGAGGGAGGTTCTTAAGAGCAAAAGAGGACCTGTAGTTAGAACCGTCATCAACATTCTGTTTGGCAAGTAG
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 PPR_2 Ribosomal_L15e

Protein Analysis

332

Amino Acids

36.53

Weight (kDa)

9.02

Isoelectric Point (pI)

49.76

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 170 - 211 2.3e-06 PPR repeat family
PPR_long PF17177 175 - 314 2.6e-07 Pentacotripeptide-repeat region of PRORP
TPR_24 PF23276 176 - 287 1.5e-08 Fungal tetratrico peptide repeats
PPR_3 PF13812 186 - 244 5e-11 Pentatricopeptide repeat domain
PPR_2 PF13041 197 - 245 2e-14 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 597
AccII CGCG 2 cut(s) 267, 362
AcyI GRCGYC 1 cut(s) 594
AfaI GTAC 1 cut(s) 398
AflII CTTAAG 1 cut(s) 938
AgsI TTSAA 1 cut(s) 658
AhdI GACNNNNNGTC 1 cut(s) 520
AjnI CCWGG 1 cut(s) 742
AjuI GAANNNNNNNTTGG 2 cut(s) 290, 322
AluBI AGCT 3 cut(s) 219, 385, 556
AluI AGCT 3 cut(s) 219, 385, 556
Alw21I GWGCWC 1 cut(s) 558
Alw26I GTCTC 1 cut(s) 85
Ama87I CYCGRG 2 cut(s) 21, 682
AoxI GGCC 6 cut(s) 24, 484, 546, 621, 678, 803
ApeKI GCWGC 3 cut(s) 219, 228, 734
AspLEI GCGC 1 cut(s) 730
AspS9I GGNCC 5 cut(s) 24, 430, 439, 804, 953
AsuC2I CCSGG 1 cut(s) 434
AsuHPI GGTGA 2 cut(s) 481, 937
AvaI CYCGRG 2 cut(s) 21, 682
AvaII GGWCC 3 cut(s) 430, 439, 953
BanII GRGCYC 1 cut(s) 558
BauI CACGAG 1 cut(s) 542
BbsI GAAGAC 2 cut(s) 336, 454
Bbv12I GWGCWC 1 cut(s) 558
BbvI GCAGC 3 cut(s) 206, 215, 746
BccI CCATC 6 cut(s) 137, 150, 325, 431, 524, 781
BceAI ACGGC 5 cut(s) 62, 198, 286, 499, 596
BcgI CGANNNNNNTGC 2 cut(s) 824, 858
BciT130I CCWGG 1 cut(s) 744
BclI TGATCA 1 cut(s) 720
BcnI CCSGG 1 cut(s) 434
BcoDI GTCTC 1 cut(s) 85
BfmI CTRYAG 1 cut(s) 957
BfoI RGCGCY 1 cut(s) 731
BfrI CTTAAG 1 cut(s) 938
BglI GCCNNNNNGGC 1 cut(s) 270
BisI GCNGC 8 cut(s) 105, 108, 220, 229, 265, 735, 803, 813
BlsI GCNGC 8 cut(s) 106, 109, 221, 230, 266, 736, 804, 814
Bme1390I CCNGG 2 cut(s) 434, 744
Bme18I GGWCC 3 cut(s) 430, 439, 953
BmeRI GACNNNNNGTC 1 cut(s) 520
BmeT110I CYCGRG 2 cut(s) 21, 682
BmgT120I GGNCC 5 cut(s) 24, 430, 439, 804, 953
BmiI GGNNCC 3 cut(s) 212, 432, 441
BmrFI CCNGG 2 cut(s) 434, 744
BmsI GCATC 1 cut(s) 751
BoxI GACNNNNGTC 1 cut(s) 579
BpiI GAAGAC 2 cut(s) 336, 454
BpuMI CCSGG 1 cut(s) 434
BsaAI YACGTR 1 cut(s) 819
BsaHI GRCGYC 1 cut(s) 594
BsaJI CCNNGG 4 cut(s) 297, 549, 681, 742
BsaXI ACNNNNNCTCC 2 cut(s) 857, 887
Bse1I ACTGG 1 cut(s) 885
BseBI CCWGG 1 cut(s) 744
BseDI CCNNGG 4 cut(s) 297, 549, 681, 742
BseGI GGATG 3 cut(s) 317, 678, 766
BseMII CTCAG 2 cut(s) 147, 578
BseNI ACTGG 1 cut(s) 885
BseRI GAGGAG 2 cut(s) 73, 878
BseXI GCAGC 3 cut(s) 206, 215, 746
BseYI CCCAGC 1 cut(s) 278
Bsh1236I CGCG 2 cut(s) 267, 362
BshFI GGCC 6 cut(s) 26, 486, 548, 623, 680, 805
BsiHKAI GWGCWC 1 cut(s) 558
BsiHKCI CYCGRG 2 cut(s) 21, 682
BsiSI CCGG 3 cut(s) 434, 636, 911
BsiWI CGTACG 1 cut(s) 396
BsmAI GTCTC 1 cut(s) 85
BsmBI CGTCTC 1 cut(s) 85
BsmI GAATGC 1 cut(s) 804
BsnI GGCC 6 cut(s) 26, 486, 548, 623, 680, 805
BsoBI CYCGRG 2 cut(s) 21, 682
Bsp1286I GDGCHC 1 cut(s) 558
Bsp143I GATC 2 cut(s) 369, 720
BspANI GGCC 6 cut(s) 26, 486, 548, 623, 680, 805
BspCNI CTCAG 2 cut(s) 146, 577
BspFNI CGCG 2 cut(s) 267, 362
BspLI GGNNCC 3 cut(s) 212, 432, 441
BspTI CTTAAG 1 cut(s) 938
BsrI ACTGG 1 cut(s) 885
BssECI CCNNGG 4 cut(s) 297, 549, 681, 742
BssMI GATC 2 cut(s) 369, 720
BssNI GRCGYC 1 cut(s) 594
BssSI CACGAG 1 cut(s) 542
BssT1I CCWWGG 2 cut(s) 297, 549
Bst2BI CACGAG 1 cut(s) 542
Bst2UI CCWGG 1 cut(s) 744
Bst4CI ACNGT 4 cut(s) 254, 396, 713, 970
Bst6I CTCTTC 1 cut(s) 879
BstACI GRCGYC 1 cut(s) 594
BstAFI CTTAAG 1 cut(s) 938
BstBAI YACGTR 1 cut(s) 819
BstC8I GCNNGC 4 cut(s) 7, 112, 420, 732
BstDEI CTNAG 4 cut(s) 133, 200, 564, 765
BstF5I GGATG 3 cut(s) 317, 678, 766
BstFNI CGCG 2 cut(s) 267, 362
BstH2I RGCGCY 1 cut(s) 731
BstHHI GCGC 1 cut(s) 730
BstKTI GATC 2 cut(s) 372, 723
BstMAI GTCTC 1 cut(s) 85
BstMBI GATC 2 cut(s) 369, 720
BstMWI GCNNNNNNNGC 8 cut(s) 104, 219, 225, 228, 264, 270, 279, 734
BstNI CCWGG 1 cut(s) 744
BstPAI GACNNNNGTC 1 cut(s) 579
BstSCI CCNGG 2 cut(s) 432, 742
BstSFI CTRYAG 1 cut(s) 957
BstSNI TACGTA 1 cut(s) 819
BstUI CGCG 2 cut(s) 267, 362
BstV1I GCAGC 3 cut(s) 206, 215, 746
BstV2I GAAGAC 2 cut(s) 336, 454
BsuRI GGCC 6 cut(s) 26, 486, 548, 623, 680, 805
BtsCI GGATG 3 cut(s) 317, 678, 766
BtsI GCAGTG 1 cut(s) 11
BtsIMutI CAGTG 2 cut(s) 11, 718
Cac8I GCNNGC 4 cut(s) 7, 112, 420, 732
CfoI GCGC 1 cut(s) 730
Cfr13I GGNCC 5 cut(s) 24, 430, 439, 804, 953
CseI GACGC 1 cut(s) 524
Csp6I GTAC 1 cut(s) 397
CviQI GTAC 1 cut(s) 397
DdeI CTNAG 4 cut(s) 133, 200, 564, 765
DpnI GATC 2 cut(s) 371, 722
DpnII GATC 2 cut(s) 369, 720
DriI GACNNNNNGTC 1 cut(s) 520
Eam1104I CTCTTC 1 cut(s) 879
Eam1105I GACNNNNNGTC 1 cut(s) 520
EarI CTCTTC 1 cut(s) 879
EciI GGCGGA 2 cut(s) 64, 875
Ecl136II GAGCTC 1 cut(s) 556
Eco105I TACGTA 1 cut(s) 819
Eco130I CCWWGG 2 cut(s) 297, 549
Eco147I AGGCCT 2 cut(s) 548, 623
Eco24I GRGCYC 1 cut(s) 558
Eco47I GGWCC 3 cut(s) 430, 439, 953
Eco53kI GAGCTC 1 cut(s) 556
Eco88I CYCGRG 2 cut(s) 21, 682
EcoICRI GAGCTC 1 cut(s) 556
EcoO109I RGGNCCY 3 cut(s) 430, 439, 953
EcoRII CCWGG 1 cut(s) 742
EcoT14I CCWWGG 2 cut(s) 297, 549
EcoT38I GRGCYC 1 cut(s) 558
ErhI CCWWGG 2 cut(s) 297, 549
Esp3I CGTCTC 1 cut(s) 85
FaiI YATR 9 cut(s) 95, 101, 192, 261, 585, 587, 785, 822, 824
FalI AAGNNNNNCTT 2 cut(s) 290, 322
FauI CCCGC 2 cut(s) 95, 427
FauNDI CATATG 1 cut(s) 585
FbaI TGATCA 1 cut(s) 720
Fnu4HI GCNGC 8 cut(s) 105, 108, 220, 229, 265, 735, 803, 813
FokI GGATG 3 cut(s) 304, 685, 773
FriOI GRGCYC 1 cut(s) 558
Fsp4HI GCNGC 8 cut(s) 105, 108, 220, 229, 265, 735, 803, 813
GlaI GCGC 1 cut(s) 729
GluI GCNGC 8 cut(s) 105, 108, 220, 229, 265, 735, 803, 813
GsaI CCCAGC 1 cut(s) 282
HaeII RGCGCY 1 cut(s) 731
HaeIII GGCC 6 cut(s) 26, 486, 548, 623, 680, 805
HapII CCGG 3 cut(s) 434, 636, 911
HgaI GACGC 1 cut(s) 524
HhaI GCGC 1 cut(s) 730
Hin1I GRCGYC 1 cut(s) 594
Hin6I GCGC 1 cut(s) 728
HinP1I GCGC 1 cut(s) 728
HincII GTYRAC 1 cut(s) 304
HindII GTYRAC 1 cut(s) 304
HinfI GANTC 1 cut(s) 233
HpaI GTTAAC 1 cut(s) 304
HpaII CCGG 3 cut(s) 434, 636, 911
HphI GGTGA 2 cut(s) 481, 937
Hpy166II GTNNAC 2 cut(s) 155, 304
Hpy188I TCNGA 3 cut(s) 136, 322, 567
Hpy188III TCNNGA 1 cut(s) 505
Hpy8I GTNNAC 2 cut(s) 155, 304
Hpy99I CGWCG 7 cut(s) 258, 272, 326, 329, 485, 518, 599
HpyAV CCTTC 4 cut(s) 640, 652, 850, 913
HpyCH4III ACNGT 4 cut(s) 254, 396, 713, 970
HpyCH4IV ACGT 2 cut(s) 594, 818
HpyCH4V TGCA 4 cut(s) 454, 500, 734, 845
HpyF10VI GCNNNNNNNGC 8 cut(s) 104, 219, 225, 228, 264, 270, 279, 734
HpyF3I CTNAG 4 cut(s) 133, 200, 564, 765
HpySE526I ACGT 2 cut(s) 594, 818
Hsp92I GRCGYC 1 cut(s) 594
HspAI GCGC 1 cut(s) 728
Ksp22I TGATCA 1 cut(s) 720
KspAI GTTAAC 1 cut(s) 304
Kzo9I GATC 2 cut(s) 369, 720
LmnI GCTCC 5 cut(s) 210, 227, 390, 477, 553
Lsp1109I GCAGC 3 cut(s) 206, 215, 746
LweI GCATC 1 cut(s) 751
MaeII ACGT 2 cut(s) 594, 818
MaeIII GTNAC 1 cut(s) 876
MalI GATC 2 cut(s) 371, 722
MboI GATC 2 cut(s) 369, 720
MboII GAAGA 4 cut(s) 152, 341, 454, 896
MhlI GDGCHC 1 cut(s) 558
MluCI AATT 1 cut(s) 748
MmeI TCCRAC 2 cut(s) 144, 345
MseI TTAA 4 cut(s) 174, 303, 570, 939
MspCI CTTAAG 1 cut(s) 938
MspI CCGG 3 cut(s) 434, 636, 911
MspR9I CCNGG 2 cut(s) 434, 744
Mva1269I GAATGC 1 cut(s) 804
MvaI CCWGG 1 cut(s) 744
MvnI CGCG 2 cut(s) 267, 362
MwoI GCNNNNNNNGC 8 cut(s) 104, 219, 225, 228, 264, 270, 279, 734
NciI CCSGG 1 cut(s) 434
NdeI CATATG 1 cut(s) 585
NdeII GATC 2 cut(s) 369, 720
NlaIV GGNNCC 3 cut(s) 212, 432, 441
PceI AGGCCT 2 cut(s) 548, 623
PcsI WCGNNNNNNNCGW 1 cut(s) 330
PctI GAATGC 1 cut(s) 804
PfeI GAWTC 1 cut(s) 233
Pfl23II CGTACG 1 cut(s) 396
PkrI GCNGC 8 cut(s) 106, 109, 221, 230, 266, 736, 804, 814
Ppu21I YACGTR 1 cut(s) 819
PpuMI RGGWCCY 3 cut(s) 430, 439, 953
PshAI GACNNNNGTC 1 cut(s) 579
Psp124BI GAGCTC 1 cut(s) 558
Psp5II RGGWCCY 3 cut(s) 430, 439, 953
Psp6I CCWGG 1 cut(s) 742
PspFI CCCAGC 1 cut(s) 278
PspGI CCWGG 1 cut(s) 742
PspLI CGTACG 1 cut(s) 396
PspN4I GGNNCC 3 cut(s) 212, 432, 441
PspPI GGNCC 5 cut(s) 24, 430, 439, 804, 953
PspPPI RGGWCCY 3 cut(s) 430, 439, 953
RsaI GTAC 1 cut(s) 398
RsaNI GTAC 1 cut(s) 397
SacI GAGCTC 1 cut(s) 558
SaqAI TTAA 4 cut(s) 174, 303, 570, 939
SatI GCNGC 8 cut(s) 105, 108, 220, 229, 265, 735, 803, 813
Sau3AI GATC 2 cut(s) 369, 720
Sau96I GGNCC 5 cut(s) 24, 430, 439, 804, 953
ScrFI CCNGG 2 cut(s) 434, 744
SduI GDGCHC 1 cut(s) 558
SfaNI GCATC 1 cut(s) 751
SfcI CTRYAG 1 cut(s) 957
SinI GGWCC 3 cut(s) 430, 439, 953
SmlI CTYRAG 1 cut(s) 938
SmoI CTYRAG 1 cut(s) 938
SnaBI TACGTA 1 cut(s) 819
Sse9I AATT 1 cut(s) 748
SseBI AGGCCT 2 cut(s) 548, 623
SspI AATATT 1 cut(s) 773
SstI GAGCTC 1 cut(s) 558
StuI AGGCCT 2 cut(s) 548, 623
StyD4I CCNGG 2 cut(s) 432, 742
StyI CCWWGG 2 cut(s) 297, 549
TaaI ACNGT 4 cut(s) 254, 396, 713, 970
TaiI ACGT 2 cut(s) 597, 821
TaqI TCGA 5 cut(s) 372, 380, 426, 513, 834
TasI AATT 1 cut(s) 748
TauI GCSGC 5 cut(s) 107, 110, 267, 805, 815
TfiI GAWTC 1 cut(s) 233
Tru1I TTAA 4 cut(s) 174, 303, 570, 939
Tru9I TTAA 4 cut(s) 174, 303, 570, 939
TscAI CASTG 2 cut(s) 18, 718
TseI GCWGC 3 cut(s) 219, 228, 734
TspDTI ATGAA 2 cut(s) 20, 905
TspGWI ACGGA 1 cut(s) 223
TspRI CASTG 2 cut(s) 18, 718
Vha464I CTTAAG 1 cut(s) 938
VpaK11BI GGWCC 3 cut(s) 430, 439, 953
ZraI GACGTC 1 cut(s) 595
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.