pycom05g13140

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr5
OG0004810
Physical Location & Seq
Reverse (-)
16719529 .. 16720939
1411 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1233 bp
ATGCATATAGATGATCAAGAGTTGGGGCTGTCTCAACCTAATGTTGTAACATATAATTTGACGTTGCAAGGATGGGATGTTAGGGGAAGCAGAGGCATTGATCAAATCTATGGAAAGGAGATGGTAGATGAAGGCATAGAACCCAGTATTTACTCTTACATCATTGTGATAAATGGGTTATGCAAAACCGGGATGCTCCGTGATGCAAGAACGGTGATGAGTCTAATGGAAAGAAATAATATTTCCCCAGATACGGTGACGTACAGTACTTTACTTCACGGTTTCTGCAGTAAAGGTAAGAGCCTTTGGAAGGAGGGAAGGACATCAGAAGCAGAGGAGCTTCTGAAAAAGATGAATGAGAGAGGTTATGGCTTAGATACTGTGATCTGCAATATTGTAATTGATGGTCTATGCAATGATGGGAAATTGGACAAAGCAATGGAAATTGTGAGTGGGATGTGGACTCATGGAAGTGTGGCTCTTGGAAACATAGGGAACTCATTTTTTGGCCTGGTTGACGATAGTAATAATGGGAAGAATTGCATCCCTGATTTGATAACGTATTCAACCATAATTGGTGGGTTATGCAAGGCTGGGAGGCTTGATGAAGCGAAGAAGAAGTTCATGGAGATGTTGGGGAAAAGCTTGCACCCTGATTCAGTGATTTATGATATGTTTATACGAAGTTTTTGTGAACAAGGAAAGATATCATCTGCATTTCGGGTGTTGAAGGACATGGAGAAAAATGGTTGCAACAAGAGTATTCAAACTTATAATTCACTAATCCTAGGATTAGGGAGGAAAAGGCAAAATTTTGAAATATACGGACTGATGGATGAGATGAGAGAAAGAGGAGTTCCTCCTGATGTATTCACTTATAATAACATGATGAAAAGTCTCTGTGAAGGAGAGAGAGTCAGAGATGCCACTTCTCTTTTAGATGAAATGCTGCAGAAAGGCATATCCCCGAATATATCTTCCCTCAGAATATTGATTGAAGCTTTCGCTAAGGGATGTGATTTTGGAGCCGTGCATGAGGTATTCAACATTGCTTTAAGTGTATGTGGCCACAAGGAAGCCTTGTATAGTTTGATGTTTAATGAGTTGCTCGCTGGAGGGGAAATATGGAGTGCTAAAGAGCTATTTGAAATTGCATTGGACAGGTATTTTTATCTGGGGAATTTTAACTACAATGATCGATCATTGACAGACTTTGCAAGGATGAAAAGTTAG

Protein Analysis

411

Amino Acids

45.96

Weight (kDa)

5.47

Isoelectric Point (pI)

30.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 39 - 93 5.3e-09 Pentatricopeptide repeat domain
TPR_24 PF23276 45 - 149 7.2e-08 Fungal tetratrico peptide repeats
PPR_1 PF12854 45 - 77 8e-06 PPR repeat
PPR_2 PF13041 48 - 96 1.4e-14 PPR repeat family
PPR_1 PF12854 80 - 100 5.2e-07 PPR repeat
PPR_1 PF12854 125 - 153 3.3e-06 PPR repeat
PPR_1 PF12854 179 - 211 1.3e-12 PPR repeat
PPR_2 PF13041 183 - 223 1.4e-08 PPR repeat family
PPR PF01535 186 - 214 8.6e-07 PPR repeat
PPR_3 PF13812 210 - 262 1.7e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 215 - 247 1.2e-07 PPR repeat
PPR_2 PF13041 218 - 266 3.4e-12 PPR repeat family
PPR_long PF17177 235 - 342 1.9e-06 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 254 - 301 5.8e-13 PPR repeat family
PPR_3 PF13812 277 - 335 8.3e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 284 - 316 6.2e-09 PPR repeat
PPR_2 PF13041 288 - 337 2e-13 PPR repeat family
PPR PF01535 291 - 321 7.9e-06 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 774, 879
AcoI YGGCCR 1 cut(s) 1066
AcsI RAATTY 2 cut(s) 811, 1180
AfaI GTAC 2 cut(s) 263, 268
AfiI CCNNNNNNNGG 2 cut(s) 253, 310
AgsI TTSAA 7 cut(s) 567, 730, 767, 818, 998, 1045, 1148
AjnI CCWGG 1 cut(s) 510
AluBI AGCT 4 cut(s) 340, 645, 1001, 1141
AluI AGCT 4 cut(s) 340, 645, 1001, 1141
Alw26I GTCTC 2 cut(s) 36, 902
AoxI GGCC 2 cut(s) 508, 1066
ApeKI GCWGC 1 cut(s) 949
ApoI RAATTY 2 cut(s) 811, 1180
Asp700I GAANNNNTTC 1 cut(s) 620
AspA2I CCTAGG 1 cut(s) 787
AsuC2I CCSGG 1 cut(s) 190
AsuHPI GGTGA 2 cut(s) 226, 268
AvrII CCTAGG 1 cut(s) 787
BalI TGGCCA 1 cut(s) 1068
BbvI GCAGC 1 cut(s) 936
BccI CCATC 5 cut(s) 66, 115, 398, 413, 826
BceAI ACGGC 1 cut(s) 1013
BciT130I CCWGG 1 cut(s) 512
BclI TGATCA 2 cut(s) 13, 100
BcnI CCSGG 1 cut(s) 190
BcoDI GTCTC 2 cut(s) 36, 902
BfaI CTAG 1 cut(s) 788
BfmI CTRYAG 2 cut(s) 286, 950
BisI GCNGC 1 cut(s) 950
BlnI CCTAGG 1 cut(s) 787
BlsI GCNGC 1 cut(s) 951
BmcAI AGTACT 1 cut(s) 268
Bme1390I CCNGG 2 cut(s) 190, 512
BmiI GGNNCC 1 cut(s) 1027
BmrFI CCNGG 2 cut(s) 190, 512
BmrI ACTGGG 1 cut(s) 138
BmsI GCATC 4 cut(s) 183, 193, 552, 913
BmuI ACTGGG 1 cut(s) 138
BpmI CTGGAG 1 cut(s) 1134
Bpu10I CCTNAGC 1 cut(s) 1008
BpuMI CCSGG 1 cut(s) 190
Bsa29I ATCGAT 1 cut(s) 1198
BsaJI CCNNGG 1 cut(s) 787
BsaXI ACNNNNNCTCC 2 cut(s) 900, 930
Bsc4I CCNNNNNNNGG 2 cut(s) 253, 310
Bse1I ACTGG 1 cut(s) 144
Bse3DI GCAATG 3 cut(s) 421, 444, 1047
BseBI CCWGG 1 cut(s) 512
BseCI ATCGAT 1 cut(s) 1198
BseDI CCNNGG 1 cut(s) 787
BseGI GGATG 8 cut(s) 77, 82, 198, 462, 543, 841, 1019, 1227
BseLI CCNNNNNNNGG 2 cut(s) 253, 310
BseMI GCAATG 3 cut(s) 421, 444, 1047
BseMII CTCAG 1 cut(s) 997
BseNI ACTGG 1 cut(s) 144
BseRI GAGGAG 2 cut(s) 350, 867
BseXI GCAGC 1 cut(s) 936
BseYI CCCAGC 1 cut(s) 593
BshFI GGCC 2 cut(s) 510, 1068
BshVI ATCGAT 1 cut(s) 1198
BsiSI CCGG 1 cut(s) 189
BslI CCNNNNNNNGG 2 cut(s) 253, 310
BsmAI GTCTC 2 cut(s) 36, 902
BsnI GGCC 2 cut(s) 510, 1068
Bsp143I GATC 5 cut(s) 13, 100, 384, 1195, 1199
BspANI GGCC 2 cut(s) 510, 1068
BspCNI CTCAG 1 cut(s) 996
BspDI ATCGAT 1 cut(s) 1198
BspLI GGNNCC 1 cut(s) 1027
BspMAI CTGCAG 2 cut(s) 290, 954
BsrDI GCAATG 3 cut(s) 421, 444, 1047
BsrI ACTGG 1 cut(s) 144
BssECI CCNNGG 1 cut(s) 787
BssMI GATC 5 cut(s) 13, 100, 384, 1195, 1199
BssT1I CCWWGG 1 cut(s) 787
Bst2UI CCWGG 1 cut(s) 512
Bst4CI ACNGT 5 cut(s) 214, 256, 266, 281, 382
BstC8I GCNNGC 2 cut(s) 647, 1110
BstDEI CTNAG 3 cut(s) 373, 983, 1008
BstENI CCTNNNNNAGG 1 cut(s) 308
BstF5I GGATG 8 cut(s) 77, 82, 198, 462, 543, 841, 1019, 1227
BstKTI GATC 5 cut(s) 16, 103, 387, 1198, 1202
BstMAI GTCTC 2 cut(s) 36, 902
BstMBI GATC 5 cut(s) 13, 100, 384, 1195, 1199
BstNI CCWGG 1 cut(s) 512
BstSCI CCNGG 2 cut(s) 188, 510
BstSFI CTRYAG 2 cut(s) 286, 950
BstV1I GCAGC 1 cut(s) 936
Bsu15I ATCGAT 1 cut(s) 1198
BsuRI GGCC 2 cut(s) 510, 1068
BsuTUI ATCGAT 1 cut(s) 1198
BtsCI GGATG 8 cut(s) 77, 82, 198, 462, 543, 841, 1019, 1227
BtsIMutI CAGTG 1 cut(s) 666
Cac8I GCNNGC 2 cut(s) 647, 1110
ClaI ATCGAT 1 cut(s) 1198
Csp6I GTAC 2 cut(s) 262, 267
CviAII CATG 5 cut(s) 467, 625, 736, 886, 1034
CviQI GTAC 2 cut(s) 262, 267
DdeI CTNAG 3 cut(s) 373, 983, 1008
DpnI GATC 5 cut(s) 15, 102, 386, 1197, 1201
DpnII GATC 5 cut(s) 13, 100, 384, 1195, 1199
EaeI YGGCCR 1 cut(s) 1066
Eco130I CCWWGG 1 cut(s) 787
Eco32I GATATC 1 cut(s) 708
EcoNI CCTNNNNNAGG 1 cut(s) 308
EcoRII CCWGG 1 cut(s) 510
EcoRV GATATC 1 cut(s) 708
EcoT14I CCWWGG 1 cut(s) 787
EcoT22I ATGCAT 1 cut(s) 6
ErhI CCWWGG 1 cut(s) 787
FaeI CATG 5 cut(s) 470, 628, 739, 889, 1037
FalI AAGNNNNNCTT 2 cut(s) 1064, 1096
FatI CATG 5 cut(s) 466, 624, 735, 885, 1033
FbaI TGATCA 2 cut(s) 13, 100
Fnu4HI GCNGC 1 cut(s) 950
FokI GGATG 7 cut(s) 84, 89, 205, 469, 530, 848, 1026
Fsp4HI GCNGC 1 cut(s) 950
FspBI CTAG 1 cut(s) 788
GluI GCNGC 1 cut(s) 950
GsaI CCCAGC 1 cut(s) 597
GsuI CTGGAG 1 cut(s) 1134
HaeIII GGCC 2 cut(s) 510, 1068
HapII CCGG 1 cut(s) 189
Hin1II CATG 5 cut(s) 470, 628, 739, 889, 1037
HincII GTYRAC 1 cut(s) 517
HindII GTYRAC 1 cut(s) 517
HindIII AAGCTT 2 cut(s) 643, 999
HinfI GANTC 4 cut(s) 220, 463, 656, 915
HpaII CCGG 1 cut(s) 189
HphI GGTGA 2 cut(s) 226, 268
Hpy166II GTNNAC 3 cut(s) 462, 517, 695
Hpy188I TCNGA 4 cut(s) 328, 345, 920, 986
Hpy188III TCNNGA 2 cut(s) 17, 863
Hpy8I GTNNAC 3 cut(s) 462, 517, 695
HpyAV CCTTC 5 cut(s) 125, 304, 312, 724, 899
HpyCH4III ACNGT 5 cut(s) 214, 256, 266, 281, 382
HpyCH4IV ACGT 3 cut(s) 62, 260, 560
HpyF3I CTNAG 3 cut(s) 373, 983, 1008
HpySE526I ACGT 3 cut(s) 62, 260, 560
Hsp92II CATG 5 cut(s) 470, 628, 739, 889, 1037
Ksp22I TGATCA 2 cut(s) 13, 100
Kzo9I GATC 5 cut(s) 13, 100, 384, 1195, 1199
LmnI GCTCC 3 cut(s) 201, 337, 1025
Lsp1109I GCAGC 1 cut(s) 936
LweI GCATC 4 cut(s) 183, 193, 552, 913
MaeI CTAG 1 cut(s) 788
MaeII ACGT 3 cut(s) 62, 260, 560
MaeIII GTNAC 2 cut(s) 46, 256
MalI GATC 5 cut(s) 15, 102, 386, 1197, 1201
MboI GATC 5 cut(s) 13, 100, 384, 1195, 1199
MboII GAAGA 4 cut(s) 547, 625, 628, 969
MlsI TGGCCA 1 cut(s) 1068
MluNI TGGCCA 1 cut(s) 1068
MlyI GAGTC 3 cut(s) 229, 457, 924
Mox20I TGGCCA 1 cut(s) 1068
Mph1103I ATGCAT 1 cut(s) 6
MroXI GAANNNNTTC 1 cut(s) 620
MscI TGGCCA 1 cut(s) 1068
MseI TTAA 3 cut(s) 1055, 1098, 1185
MslI CAYNNNNRTG 4 cut(s) 9, 164, 471, 629
Msp20I TGGCCA 1 cut(s) 1068
MspI CCGG 1 cut(s) 189
MspR9I CCNGG 2 cut(s) 190, 512
MvaI CCWGG 1 cut(s) 512
NciI CCSGG 1 cut(s) 190
NdeII GATC 5 cut(s) 13, 100, 384, 1195, 1199
NlaIII CATG 5 cut(s) 470, 628, 739, 889, 1037
NlaIV GGNNCC 1 cut(s) 1027
NmuCI GTSAC 1 cut(s) 256
NsiI ATGCAT 1 cut(s) 6
PdmI GAANNNNTTC 1 cut(s) 620
PfeI GAWTC 1 cut(s) 656
PkrI GCNGC 1 cut(s) 951
PleI GAGTC 3 cut(s) 228, 457, 923
PpsI GAGTC 3 cut(s) 228, 457, 923
PsiI TTATAA 2 cut(s) 774, 879
Psp6I CCWGG 1 cut(s) 510
PspFI CCCAGC 1 cut(s) 593
PspGI CCWGG 1 cut(s) 510
PspN4I GGNNCC 1 cut(s) 1027
PstI CTGCAG 2 cut(s) 290, 954
RsaI GTAC 2 cut(s) 263, 268
RsaNI GTAC 2 cut(s) 262, 267
RseI CAYNNNNRTG 4 cut(s) 9, 164, 471, 629
SaqAI TTAA 3 cut(s) 1055, 1098, 1185
SatI GCNGC 1 cut(s) 950
Sau3AI GATC 5 cut(s) 13, 100, 384, 1195, 1199
ScaI AGTACT 1 cut(s) 268
SchI GAGTC 3 cut(s) 229, 457, 924
ScrFI CCNGG 2 cut(s) 190, 512
SfaNI GCATC 4 cut(s) 183, 193, 552, 913
SfcI CTRYAG 2 cut(s) 286, 950
SmiMI CAYNNNNRTG 4 cut(s) 9, 164, 471, 629
SspI AATATT 3 cut(s) 241, 394, 990
SspMI CTAG 1 cut(s) 788
StyD4I CCNGG 2 cut(s) 188, 510
StyI CCWWGG 1 cut(s) 787
TaaI ACNGT 5 cut(s) 214, 256, 266, 281, 382
TaiI ACGT 3 cut(s) 65, 263, 563
TaqI TCGA 1 cut(s) 1198
TatI WGTACW 1 cut(s) 266
TfiI GAWTC 1 cut(s) 656
Tru1I TTAA 3 cut(s) 1055, 1098, 1185
Tru9I TTAA 3 cut(s) 1055, 1098, 1185
TscAI CASTG 1 cut(s) 666
TseFI GTSAC 1 cut(s) 256
TseI GCWGC 1 cut(s) 949
Tsp45I GTSAC 1 cut(s) 256
TspDTI ATGAA 6 cut(s) 144, 368, 613, 621, 905, 957
TspGWI ACGGA 2 cut(s) 188, 840
TspRI CASTG 1 cut(s) 666
XagI CCTNNNNNAGG 1 cut(s) 308
XapI RAATTY 2 cut(s) 811, 1180
XmaJI CCTAGG 1 cut(s) 787
XmnI GAANNNNTTC 1 cut(s) 620
XspI CTAG 1 cut(s) 788
ZrmI AGTACT 1 cut(s) 268
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.