pycom05g25840

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr5
OG0013500
Physical Location & Seq
Reverse (-)
27157850 .. 27158761
912 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom05g25840.1

Sequence Viewer

Length: 912 bp
ATGCTTCCAAAGCATTCCACACTCATCCACCCATCTTTTGCACATAAATTCTCAACAACCTCGACTCACAACCCCAAAACCCACTTCTCTACCTTTGCACCCTCCTCGCAAACTTCCCCACAAAACCCAATTGGTCACCTTCTCCAAAAATGCATTGCTCTCCTGCAATGCTGTGCATCCTCCAATTCCAAACTGAAGCAAATCCATGGCTTCTCCATAAGGCATGGGGTACCACTCAGCAATCCAGACATGGGCAAACACCTCATCTTCTTCATAGTCTCTCTCTGCGCCCCAATTTCCTATGCACACCAAATATTTTCCCAAATAGAAAACCCCAATGTGTTCACATGGAATACCATGATCAGAGGCTATGCTGAGTGTCAGAACCCAGCTCCTGTCATCCAACTTTACCACCAGATGCATCAAAGTTCCGTGCAACCTGATACACACACTTACCCTTTTCTTTTGAAGGCCGTGGCTAAGTTGATGGATGTTGGAGAGGGTGAGAAGATACATTCTGTTGTCGTAAGAAATGGGTTTGAGTCATTGGTGTTTGTTAAGAATGCATTGCTTCATGTCTATGCCTGTTGTGGGCATGTTGAGAGTGCACACAAGATGTTTGAATCAATGTCTGAGAGGGACCTTGTGGCTTGGAATTCTGTGATTAATGGGTTTGCTTTAAACGGGAGGCCGAACGAGGCTCTGACGATTTTCAGGGATATGAATTTGGAAGGTGTTGAGCCGGATGGGTTCACCATGGTTAGCTTGTTATCTGCTTGTGCTGAGATTGGGACTTTGGCTTTGGGTAGGAGGATCGATCTGTATATGTTGAAGGTGGGATTGACTGGGAATTCACATGCTACGAATGCCCTAATAATGGCTGGATCTCTATGCAAAGTGTGGAAGCATTAG
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 X8

Protein Analysis

304

Amino Acids

33.51

Weight (kDa)

8.55

Isoelectric Point (pI)

41.22

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 112 - 161 1.4e-12 PPR repeat family
PPR_2 PF13041 214 - 261 2.3e-11 PPR repeat family
PPR PF01535 216 - 246 7.5e-07 PPR repeat
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: OG0013500)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G21065 AT4G21065
fragaria_vesca FvH4_3g09500
malus_domestica MD05G1277300.v1.1 MD10G1256200.v1.1
prunus_persica Prupe.4G087400_v2.0.a1
pyrus_communis pycom05g25840 pycom10g21200
rosa_chinensis RchiOBHm_Chr5g0015081
rosa_laevigata RLG00000032168
rosa_multiflora Rmu_co8160296.1_g000001 Rmu_sc0002209.1_g000002 Rmu_sc0009777.1_g000014 Rmu_sc0036572.1_g000001
rosa_roxburghii Rroxscaffold_1G00061450
rosa_rugosa Rorug05G0024200
rosa_samantha Rh5CG127500
rosa_wichuraiana Rw5G010250

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 229
AccB1I GGYRCC 1 cut(s) 229
AclWI GGATC 2 cut(s) 821, 892
AcsI RAATTY 4 cut(s) 47, 655, 724, 850
AcuI CTGAAG 1 cut(s) 215
AfaI GTAC 1 cut(s) 231
AfiI CCNNNNNNNGG 3 cut(s) 251, 591, 877
AgsI TTSAA 3 cut(s) 469, 623, 832
AjuI GAANNNNNNNTTGG 2 cut(s) 68, 100
AluBI AGCT 2 cut(s) 392, 765
AluI AGCT 2 cut(s) 392, 765
Alw21I GWGCWC 1 cut(s) 610
Alw26I GTCTC 1 cut(s) 283
Alw44I GTGCAC 1 cut(s) 606
AlwI GGATC 2 cut(s) 821, 892
AlwNI CAGNNNCTG 1 cut(s) 395
AoxI GGCC 2 cut(s) 471, 689
ApaLI GTGCAC 1 cut(s) 606
ApoI RAATTY 4 cut(s) 47, 655, 724, 850
ArsI GACNNNNNNTTYG 2 cut(s) 784, 816
AseI ATTAAT 1 cut(s) 666
Asp718I GGTACC 1 cut(s) 229
AspLEI GCGC 1 cut(s) 290
AspS9I GGNCC 1 cut(s) 640
AsuHPI GGTGA 3 cut(s) 128, 515, 745
AvaII GGWCC 1 cut(s) 640
BaeGI GKGCMC 1 cut(s) 610
BanI GGYRCC 1 cut(s) 229
Bbv12I GWGCWC 1 cut(s) 610
BccI CCATC 3 cut(s) 40, 481, 740
BceAI ACGGC 1 cut(s) 458
BcgI CGANNNNNNTGC 2 cut(s) 87, 121
BclI TGATCA 1 cut(s) 360
BcoDI GTCTC 1 cut(s) 283
Bme18I GGWCC 1 cut(s) 640
BmgT120I GGNCC 1 cut(s) 640
BmiI GGNNCC 2 cut(s) 231, 641
BmrI ACTGGG 1 cut(s) 855
BmsI GCATC 3 cut(s) 185, 408, 430
BmuI ACTGGG 1 cut(s) 855
Bsa29I ATCGAT 1 cut(s) 816
BsaJI CCNNGG 3 cut(s) 205, 474, 756
Bsc4I CCNNNNNNNGG 3 cut(s) 251, 591, 877
Bse1I ACTGG 1 cut(s) 850
Bse3DI GCAATG 3 cut(s) 153, 173, 566
BseCI ATCGAT 1 cut(s) 816
BseDI CCNNGG 3 cut(s) 205, 474, 756
BseGI GGATG 5 cut(s) 24, 176, 399, 496, 751
BseLI CCNNNNNNNGG 3 cut(s) 251, 591, 877
BseMI GCAATG 3 cut(s) 153, 173, 566
BseMII CTCAG 4 cut(s) 250, 366, 624, 774
BseNI ACTGG 1 cut(s) 850
BseRI GAGGAG 1 cut(s) 94
BseSI GKGCMC 1 cut(s) 610
BseYI CCCAGC 1 cut(s) 388
BshFI GGCC 2 cut(s) 473, 691
BshNI GGYRCC 1 cut(s) 229
BshVI ATCGAT 1 cut(s) 816
BsiHKAI GWGCWC 1 cut(s) 610
BsiSI CCGG 1 cut(s) 743
BslFI GGGAC 2 cut(s) 653, 805
BslI CCNNNNNNNGG 3 cut(s) 251, 591, 877
BsmAI GTCTC 1 cut(s) 283
BsmFI GGGAC 2 cut(s) 653, 805
BsmI GAATGC 3 cut(s) 13, 568, 871
BsnI GGCC 2 cut(s) 473, 691
Bsp1286I GDGCHC 1 cut(s) 610
Bsp143I GATC 4 cut(s) 360, 813, 817, 884
Bsp19I CCATGG 2 cut(s) 205, 756
BspANI GGCC 2 cut(s) 473, 691
BspCNI CTCAG 4 cut(s) 249, 367, 625, 775
BspDI ATCGAT 1 cut(s) 816
BspLI GGNNCC 2 cut(s) 231, 641
BspPI GGATC 2 cut(s) 821, 892
BspT107I GGYRCC 1 cut(s) 229
BsrDI GCAATG 3 cut(s) 153, 173, 566
BsrI ACTGG 1 cut(s) 850
BssECI CCNNGG 3 cut(s) 205, 474, 756
BssMI GATC 4 cut(s) 360, 813, 817, 884
BssT1I CCWWGG 2 cut(s) 205, 756
BstDEI CTNAG 5 cut(s) 236, 375, 480, 633, 783
BstDSI CCRYGG 3 cut(s) 205, 474, 756
BstEII GGTNACC 1 cut(s) 134
BstF5I GGATG 5 cut(s) 24, 176, 399, 496, 751
BstHHI GCGC 1 cut(s) 290
BstKTI GATC 4 cut(s) 363, 816, 820, 887
BstMAI GTCTC 1 cut(s) 283
BstMBI GATC 4 cut(s) 360, 813, 817, 884
BstMWI GCNNNNNNNGC 2 cut(s) 10, 866
BstNSI RCATGY 2 cut(s) 599, 860
BstPI GGTNACC 1 cut(s) 134
BstSLI GKGCMC 1 cut(s) 610
BstX2I RGATCY 1 cut(s) 884
BstYI RGATCY 1 cut(s) 884
Bsu15I ATCGAT 1 cut(s) 816
BsuRI GGCC 2 cut(s) 473, 691
BsuTUI ATCGAT 1 cut(s) 816
BtgI CCRYGG 3 cut(s) 205, 474, 756
BtsCI GGATG 5 cut(s) 24, 176, 399, 496, 751
CaiI CAGNNNCTG 1 cut(s) 395
CfoI GCGC 1 cut(s) 290
Cfr13I GGNCC 1 cut(s) 640
ClaI ATCGAT 1 cut(s) 816
Csp6I GTAC 1 cut(s) 230
CviAII CATG 9 cut(s) 206, 224, 250, 348, 358, 575, 596, 757, 857
CviQI GTAC 1 cut(s) 230
DdeI CTNAG 5 cut(s) 236, 375, 480, 633, 783
DpnI GATC 4 cut(s) 362, 815, 819, 886
DpnII GATC 4 cut(s) 360, 813, 817, 884
DraI TTTAAA 1 cut(s) 681
Eco130I CCWWGG 2 cut(s) 205, 756
Eco47I GGWCC 1 cut(s) 640
Eco57I CTGAAG 1 cut(s) 215
Eco91I GGTNACC 1 cut(s) 134
EcoO109I RGGNCCY 1 cut(s) 640
EcoO65I GGTNACC 1 cut(s) 134
EcoRI GAATTC 2 cut(s) 655, 850
EcoT14I CCWWGG 2 cut(s) 205, 756
EcoT22I ATGCAT 3 cut(s) 155, 423, 568
ErhI CCWWGG 2 cut(s) 205, 756
FaeI CATG 9 cut(s) 209, 227, 253, 351, 361, 578, 599, 760, 860
FaqI GGGAC 2 cut(s) 653, 805
FatI CATG 9 cut(s) 205, 223, 249, 347, 357, 574, 595, 756, 856
FbaI TGATCA 1 cut(s) 360
FokI GGATG 5 cut(s) 11, 163, 386, 503, 758
GlaI GCGC 1 cut(s) 289
GsaI CCCAGC 1 cut(s) 392
HaeIII GGCC 2 cut(s) 473, 691
HapII CCGG 1 cut(s) 743
HhaI GCGC 1 cut(s) 290
Hin1II CATG 9 cut(s) 209, 227, 253, 351, 361, 578, 599, 760, 860
Hin6I GCGC 1 cut(s) 288
HinP1I GCGC 1 cut(s) 288
HinfI GANTC 3 cut(s) 64, 542, 623
HpaII CCGG 1 cut(s) 743
HphI GGTGA 3 cut(s) 128, 515, 745
Hpy166II GTNNAC 3 cut(s) 345, 608, 753
Hpy188I TCNGA 4 cut(s) 365, 384, 634, 705
Hpy188III TCNNGA 1 cut(s) 245
Hpy8I GTNNAC 3 cut(s) 345, 608, 753
HpyAV CCTTC 4 cut(s) 149, 463, 725, 826
HpyF10VI GCNNNNNNNGC 2 cut(s) 10, 866
HpyF3I CTNAG 5 cut(s) 236, 375, 480, 633, 783
Hsp92II CATG 9 cut(s) 209, 227, 253, 351, 361, 578, 599, 760, 860
HspAI GCGC 1 cut(s) 288
KpnI GGTACC 1 cut(s) 233
Ksp22I TGATCA 1 cut(s) 360
Kzo9I GATC 4 cut(s) 360, 813, 817, 884
LmnI GCTCC 1 cut(s) 397
LweI GCATC 3 cut(s) 185, 408, 430
MaeIII GTNAC 1 cut(s) 134
MalI GATC 4 cut(s) 362, 815, 819, 886
MboI GATC 4 cut(s) 360, 813, 817, 884
MboII GAAGA 3 cut(s) 259, 262, 520
MfeI CAATTG 1 cut(s) 129
MflI RGATCY 1 cut(s) 884
MhlI GDGCHC 1 cut(s) 610
MluCI AATT 7 cut(s) 47, 129, 184, 294, 655, 724, 850
MlyI GAGTC 2 cut(s) 58, 551
MmeI TCCRAC 2 cut(s) 427, 475
Mph1103I ATGCAT 3 cut(s) 155, 423, 568
MseI TTAA 3 cut(s) 558, 666, 680
MslI CAYNNNNRTG 1 cut(s) 579
MspI CCGG 1 cut(s) 743
MunI CAATTG 1 cut(s) 129
Mva1269I GAATGC 3 cut(s) 13, 568, 871
MwoI GCNNNNNNNGC 2 cut(s) 10, 866
NcoI CCATGG 2 cut(s) 205, 756
NdeII GATC 4 cut(s) 360, 813, 817, 884
NlaIII CATG 9 cut(s) 209, 227, 253, 351, 361, 578, 599, 760, 860
NlaIV GGNNCC 2 cut(s) 231, 641
NmuCI GTSAC 1 cut(s) 134
NsiI ATGCAT 3 cut(s) 155, 423, 568
NspI RCATGY 2 cut(s) 599, 860
PctI GAATGC 3 cut(s) 13, 568, 871
PfeI GAWTC 1 cut(s) 623
PleI GAGTC 2 cut(s) 58, 550
PpsI GAGTC 2 cut(s) 58, 550
PpuMI RGGWCCY 1 cut(s) 640
PshBI ATTAAT 1 cut(s) 666
Psp5II RGGWCCY 1 cut(s) 640
PspEI GGTNACC 1 cut(s) 134
PspFI CCCAGC 1 cut(s) 388
PspN4I GGNNCC 2 cut(s) 231, 641
PspPI GGNCC 1 cut(s) 640
PspPPI RGGWCCY 1 cut(s) 640
PstNI CAGNNNCTG 1 cut(s) 395
PsuI RGATCY 1 cut(s) 884
RsaI GTAC 1 cut(s) 231
RsaNI GTAC 1 cut(s) 230
RseI CAYNNNNRTG 1 cut(s) 579
SaqAI TTAA 3 cut(s) 558, 666, 680
Sau3AI GATC 4 cut(s) 360, 813, 817, 884
Sau96I GGNCC 1 cut(s) 640
SchI GAGTC 2 cut(s) 58, 551
SduI GDGCHC 1 cut(s) 610
SfaNI GCATC 3 cut(s) 185, 408, 430
SinI GGWCC 1 cut(s) 640
SmiMI CAYNNNNRTG 1 cut(s) 579
Sse9I AATT 7 cut(s) 47, 129, 184, 294, 655, 724, 850
SspI AATATT 1 cut(s) 315
StyI CCWWGG 2 cut(s) 205, 756
TaqI TCGA 2 cut(s) 62, 816
TasI AATT 7 cut(s) 47, 129, 184, 294, 655, 724, 850
TfiI GAWTC 1 cut(s) 623
Tru1I TTAA 3 cut(s) 558, 666, 680
Tru9I TTAA 3 cut(s) 558, 666, 680
TseFI GTSAC 1 cut(s) 134
Tsp45I GTSAC 1 cut(s) 134
TspDTI ATGAA 3 cut(s) 262, 563, 737
TspGWI ACGGA 1 cut(s) 421
VneI GTGCAC 1 cut(s) 606
VpaK11BI GGWCC 1 cut(s) 640
VspI ATTAAT 1 cut(s) 666
XapI RAATTY 4 cut(s) 47, 655, 724, 850
XceI RCATGY 2 cut(s) 599, 860
Zsp2I ATGCAT 3 cut(s) 155, 423, 568
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.