pycom06g18980

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr6
OG0014089
Physical Location & Seq
Reverse (-)
22529948 .. 22531457
1510 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom06g18980.1

Sequence Viewer

Length: 1452 bp
ATGGGCCTGCGGCCCGGCGGGAATTTAAAACAATGTAAGCAAACCAAAATGAAAGCTTCAAAACCAATATCTCCCTTCAGGCTCTGCTCCCTCCTCCGTCGCGAGAAGAACCCAAATCTCGCCCTCCAAATCTTCCAAAACCCCAACCCCGATTCGAATCCTCCACCCAGAAAGCTCTTTCGCTACTCTCTCCTTTCCTACGACCTCATCATCACCAAGCTCGGCCGCGCCAAAATGTTCGACCAGATGGAGCAAATCCTCCATCAAATGAAGCAAGAAACCCGTTTCGCTCCACCAGAAATAATCTTCTGCAATGTCATTTCGTTCTACGGTCGGGCTCGTCTTCCCGACCGTGCACTCCAATTGTTCGATGAAATTCCCGCTTTCCGTTGCCAACGGACGGTGAAATCGTTGAATTCGCTGCTGGATGCGCTTTTCAAGTGCGGGGAGTTTGAGAAAATGAGGAGATTTTTTGGGGGTTTTGAGATTTACGCGACCCCAGATGCGTGTACTTATAATATATTGATCAAAGCTTGTTGTGCGAATGAGTGCTTGGATGATGCGTGGAAGGTGTTCGATGAAATGTCTAGGAAGGGTGTTCGTCCGACTACGGTGACGTTTGGAACTTTGATTTACTGGCTTTGTTCAAATTTCAGGTTGAAAGAAGCTTTTAAGTTGAAATACGATATGGTGGCGATTCATGGTGTTGTGCCTGATCTATACGTGTATACCTCTTTGATCAAAGGGCTTTGTAAGATTGGTGAAATGACTTCGGCTTTTGAGCTGAAAGAGGAGATGGTAACGAAGAAAATCAAACCCGATTCAGCCGTTTATTCAACTTTAATCAGCGGGCTTTTCAATGCTGGTCGGAAAGAAGAGGTTTCCGGGCTCTTGGAGGAAATGAGCGAGTACGGGTGTAAACCAGATGCTGTGACGTTTAATACAATGATTCACGGGTTGTGTAAAGAGAAGAACTTCGAAGCAGCATATAGAGTTTTGGATGAGATGACGGAGAAAGCTTGTGAGCCAGATGTTATTAGTTACAATATAATTATCGGTGGATTATGCAGGGATGGGAAATGGAGGGAAGCAAATGATTTGCTCGAAGATTTACCACGACGAGGGTGCACTCCTGATGTGGTTTCATACCGAACAATGTTCGATGGACTTTGCCATTGGAGGCAGTTCAATGAAGCATCCCTCGTTTTAGACGAGATGATCTTCAAGGGCTTTGCGCCTCGGCTTGCAAGTACACAGAAACTTGTTGAGGGGTTGTGTGAGGAAGATAATGCAGAGTTGTTAGGGACAGTTTTAACTAGTCTGAGAATGGGAAAGGGGAGTTTTCTTCATGTGGATATCTGGGGAATGTTGATTGATATGGTTTGCAAGAAGGAGAAGCTTTCAAATGTCTCTAAGCTTGTTGATAATTTAGTAATGCAATGTAGCAATTGA
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_1 PPR_2 PPR_3

Protein Analysis

484

Amino Acids

55.07

Weight (kDa)

8.38

Isoelectric Point (pI)

35.33

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_1 PF12854 166 - 196 1.6e-09 PPR repeat
PPR_2 PF13041 167 - 215 9.3e-17 PPR repeat family
PPR_3 PF13812 167 - 211 2.1e-07 Pentatricopeptide repeat domain
PPR PF01535 171 - 200 1.9e-08 PPR repeat
PPR_long PF17177 172 - 301 1.6e-09 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 198 - 230 4.2e-06 PPR repeat
PPR_2 PF13041 202 - 252 8e-11 PPR repeat family
PPR_1 PF12854 235 - 267 3.8e-10 PPR repeat
PPR_2 PF13041 238 - 286 2.2e-13 PPR repeat family
PPR_long PF17177 257 - 345 6.8e-06 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 262 - 318 3.2e-10 Pentatricopeptide repeat domain
PPR_2 PF13041 273 - 322 2.8e-15 PPR repeat family
PPR_3 PF13812 297 - 353 2.3e-13 Pentatricopeptide repeat domain
PPR_1 PF12854 305 - 337 1.1e-13 PPR repeat
PPR_2 PF13041 308 - 357 5.2e-20 PPR repeat family
PPR PF01535 311 - 339 1.4e-07 PPR repeat
PPR_1 PF12854 341 - 370 4.3e-10 PPR repeat
PPR_2 PF13041 343 - 392 1.5e-18 PPR repeat family
PPR PF01535 346 - 376 1.1e-06 PPR repeat
PPR_1 PF12854 374 - 406 9.3e-06 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0014089)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G53330 AT1G53330
fragaria_vesca FvH4_5g12530
malus_domestica MD14G1223500.v1.1
prunus_persica Prupe.5G218700_v2.0.a1
pyrus_communis pycom06g18980 pycom14g18480
rosa_chinensis RchiOBHm_Chr7g0184831
rosa_laevigata RLG00000004951
rosa_multiflora Rmu_ssc0000289.1_g000014
rosa_roxburghii Rroxscaffold_3G00269350
rosa_rugosa Rorug06G0465200
rosa_samantha Rh7AG077700 Rh7BG069600 Rh7CG070400 Rh7DG069800
rosa_wichuraiana Rw7G005770

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 516
AccI GTMKAC 1 cut(s) 728
AccII CGCG 3 cut(s) 102, 228, 494
AciI CCGC 6 cut(s) 10, 18, 226, 381, 444, 849
AcoI YGGCCR 1 cut(s) 223
AcsI RAATTY 4 cut(s) 22, 375, 415, 649
AcuI CTGAAG 1 cut(s) 61
AfaI GTAC 3 cut(s) 511, 911, 1252
AfiI CCNNNNNNNGG 2 cut(s) 400, 1121
AflIII ACRYGT 1 cut(s) 723
AhlI ACTAGT 1 cut(s) 1316
AjuI GAANNNNNNNTTGG 2 cut(s) 536, 568
AluBI AGCT 9 cut(s) 56, 175, 220, 533, 668, 784, 1019, 1399, 1417
AluI AGCT 9 cut(s) 56, 175, 220, 533, 668, 784, 1019, 1399, 1417
Alw21I GWGCWC 2 cut(s) 358, 1130
Alw26I GTCTC 1 cut(s) 1414
Alw44I GTGCAC 2 cut(s) 354, 1126
AlwNI CAGNNNCTG 2 cut(s) 84, 929
AoxI GGCC 3 cut(s) 4, 11, 223
ApaLI GTGCAC 2 cut(s) 354, 1126
ApeKI GCWGC 2 cut(s) 421, 983
ApoI RAATTY 4 cut(s) 22, 375, 415, 649
Asp700I GAANNNNTTC 2 cut(s) 572, 974
AspLEI GCGC 3 cut(s) 230, 433, 1237
AspS9I GGNCC 2 cut(s) 4, 12
AsuC2I CCSGG 2 cut(s) 15, 886
AsuHPI GGTGA 4 cut(s) 205, 415, 625, 773
AsuII TTCGAA 2 cut(s) 155, 978
BaeGI GKGCMC 2 cut(s) 358, 1130
BanII GRGCYC 2 cut(s) 340, 891
BbsI GAAGAC 1 cut(s) 335
Bbv12I GWGCWC 2 cut(s) 358, 1130
BbvI GCAGC 2 cut(s) 408, 995
BccI CCATC 5 cut(s) 241, 270, 790, 1067, 1157
BceAI ACGGC 1 cut(s) 812
BcgI CGANNNNNNTGC 2 cut(s) 1107, 1141
BclI TGATCA 2 cut(s) 525, 738
BcnI CCSGG 2 cut(s) 15, 886
BcoDI GTCTC 1 cut(s) 1414
BcuI ACTAGT 1 cut(s) 1316
BfaI CTAG 2 cut(s) 588, 1317
BisI GCNGC 4 cut(s) 11, 226, 422, 984
BlsI GCNGC 4 cut(s) 12, 227, 423, 985
Bme1390I CCNGG 2 cut(s) 15, 886
BmgT120I GGNCC 2 cut(s) 4, 12
BmrFI CCNGG 2 cut(s) 15, 886
BmsI GCATC 5 cut(s) 418, 493, 550, 916, 1205
BpiI GAAGAC 1 cut(s) 335
Bpu14I TTCGAA 2 cut(s) 155, 978
BpuMI CCSGG 2 cut(s) 15, 886
BsaAI YACGTR 1 cut(s) 724
BsaBI GATNNNNATC 1 cut(s) 156
BsaJI CCNNGG 1 cut(s) 1238
Bsc4I CCNNNNNNNGG 2 cut(s) 400, 1121
Bse1I ACTGG 1 cut(s) 641
Bse3DI GCAATG 2 cut(s) 319, 1445
Bse8I GATNNNNATC 1 cut(s) 156
BseDI CCNNGG 1 cut(s) 1238
BseGI GGATG 5 cut(s) 433, 562, 1006, 1078, 1196
BseJI GATNNNNATC 1 cut(s) 156
BseLI CCNNNNNNNGG 2 cut(s) 400, 1121
BseMI GCAATG 2 cut(s) 319, 1445
BseMII CTCAG 1 cut(s) 1313
BseNI ACTGG 1 cut(s) 641
BseRI GAGGAG 3 cut(s) 83, 478, 806
BseSI GKGCMC 2 cut(s) 358, 1130
BseX3I CGGCCG 1 cut(s) 223
BseXI GCAGC 2 cut(s) 408, 995
Bsh1236I CGCG 3 cut(s) 102, 228, 494
Bsh1285I CGRYCG 3 cut(s) 226, 334, 352
BshFI GGCC 3 cut(s) 6, 13, 225
BsiEI CGRYCG 3 cut(s) 226, 334, 352
BsiHKAI GWGCWC 2 cut(s) 358, 1130
BsiSI CCGG 2 cut(s) 15, 885
BslFI GGGAC 1 cut(s) 1318
BslI CCNNNNNNNGG 2 cut(s) 400, 1121
BsmAI GTCTC 1 cut(s) 1414
BsmFI GGGAC 1 cut(s) 1318
BsnI GGCC 3 cut(s) 6, 13, 225
Bsp119I TTCGAA 2 cut(s) 155, 978
Bsp1286I GDGCHC 4 cut(s) 340, 358, 891, 1130
Bsp143I GATC 4 cut(s) 525, 715, 738, 1218
Bsp68I TCGCGA 1 cut(s) 102
BspACI CCGC 6 cut(s) 10, 18, 226, 381, 444, 849
BspANI GGCC 3 cut(s) 6, 13, 225
BspCNI CTCAG 1 cut(s) 1314
BspFNI CGCG 3 cut(s) 102, 228, 494
BspT104I TTCGAA 2 cut(s) 155, 978
BsrDI GCAATG 2 cut(s) 319, 1445
BsrI ACTGG 1 cut(s) 641
BssECI CCNNGG 1 cut(s) 1238
BssMI GATC 4 cut(s) 525, 715, 738, 1218
BssNAI GTATAC 1 cut(s) 729
Bst1107I GTATAC 1 cut(s) 729
Bst4CI ACNGT 5 cut(s) 332, 353, 403, 613, 1309
Bst6I CTCTTC 1 cut(s) 870
BstBAI YACGTR 1 cut(s) 724
BstBI TTCGAA 2 cut(s) 155, 978
BstC8I GCNNGC 3 cut(s) 8, 851, 1245
BstDEI CTNAG 2 cut(s) 1322, 1413
BstF5I GGATG 5 cut(s) 433, 562, 1006, 1078, 1196
BstFNI CGCG 3 cut(s) 102, 228, 494
BstHHI GCGC 3 cut(s) 230, 433, 1237
BstKTI GATC 4 cut(s) 528, 718, 741, 1221
BstMAI GTCTC 1 cut(s) 1414
BstMBI GATC 4 cut(s) 525, 715, 738, 1218
BstMCI CGRYCG 3 cut(s) 226, 334, 352
BstMWI GCNNNNNNNGC 2 cut(s) 430, 539
BstSCI CCNGG 2 cut(s) 13, 884
BstSLI GKGCMC 2 cut(s) 358, 1130
BstUI CGCG 3 cut(s) 102, 228, 494
BstV1I GCAGC 2 cut(s) 408, 995
BstV2I GAAGAC 1 cut(s) 335
BstZ17I GTATAC 1 cut(s) 729
BstZI CGGCCG 1 cut(s) 223
BsuRI GGCC 3 cut(s) 6, 13, 225
BtsCI GGATG 5 cut(s) 433, 562, 1006, 1078, 1196
BtuMI TCGCGA 1 cut(s) 102
Cac8I GCNNGC 3 cut(s) 8, 851, 1245
CaiI CAGNNNCTG 2 cut(s) 84, 929
CfoI GCGC 3 cut(s) 230, 433, 1237
Cfr13I GGNCC 2 cut(s) 4, 12
Csp6I GTAC 3 cut(s) 510, 910, 1251
CviAII CATG 2 cut(s) 701, 1349
CviQI GTAC 3 cut(s) 510, 910, 1251
DdeI CTNAG 2 cut(s) 1322, 1413
DpnI GATC 4 cut(s) 527, 717, 740, 1220
DpnII GATC 4 cut(s) 525, 715, 738, 1218
DraI TTTAAA 1 cut(s) 27
EaeI YGGCCR 1 cut(s) 223
EagI CGGCCG 1 cut(s) 223
Eam1104I CTCTTC 1 cut(s) 870
EarI CTCTTC 1 cut(s) 870
EclXI CGGCCG 1 cut(s) 223
Eco24I GRGCYC 2 cut(s) 340, 891
Eco32I GATATC 1 cut(s) 1357
Eco52I CGGCCG 1 cut(s) 223
Eco57I CTGAAG 1 cut(s) 61
EcoRI GAATTC 1 cut(s) 415
EcoRV GATATC 1 cut(s) 1357
EcoT38I GRGCYC 2 cut(s) 340, 891
FaeI CATG 2 cut(s) 704, 1352
FaqI GGGAC 1 cut(s) 1318
FatI CATG 2 cut(s) 700, 1348
FauI CCCGC 4 cut(s) 11, 388, 437, 842
FbaI TGATCA 2 cut(s) 525, 738
FblI GTMKAC 1 cut(s) 728
Fnu4HI GCNGC 4 cut(s) 11, 226, 422, 984
FokI GGATG 5 cut(s) 440, 569, 1013, 1085, 1183
FriOI GRGCYC 2 cut(s) 340, 891
Fsp4HI GCNGC 4 cut(s) 11, 226, 422, 984
FspBI CTAG 2 cut(s) 588, 1317
GlaI GCGC 3 cut(s) 229, 432, 1236
GluI GCNGC 4 cut(s) 11, 226, 422, 984
HaeIII GGCC 3 cut(s) 6, 13, 225
HapII CCGG 2 cut(s) 15, 885
HhaI GCGC 3 cut(s) 230, 433, 1237
Hin1II CATG 2 cut(s) 704, 1352
Hin6I GCGC 3 cut(s) 228, 431, 1235
HinP1I GCGC 3 cut(s) 228, 431, 1235
HindIII AAGCTT 6 cut(s) 54, 531, 666, 1017, 1397, 1415
HinfI GANTC 5 cut(s) 152, 157, 697, 821, 949
HpaII CCGG 2 cut(s) 15, 885
HphI GGTGA 4 cut(s) 205, 415, 625, 773
Hpy166II GTNNAC 6 cut(s) 356, 510, 729, 920, 1128, 1253
Hpy188I TCNGA 3 cut(s) 606, 870, 1323
Hpy188III TCNNGA 3 cut(s) 101, 347, 1133
Hpy8I GTNNAC 6 cut(s) 356, 510, 729, 920, 1128, 1253
Hpy99I CGWCG 2 cut(s) 102, 1122
HpyAV CCTTC 4 cut(s) 85, 562, 586, 1384
HpyCH4III ACNGT 5 cut(s) 332, 353, 403, 613, 1309
HpyCH4IV ACGT 3 cut(s) 617, 723, 935
HpyCH4V TGCA 8 cut(s) 312, 356, 1068, 1128, 1247, 1292, 1386, 1438
HpyF10VI GCNNNNNNNGC 2 cut(s) 430, 539
HpyF3I CTNAG 2 cut(s) 1322, 1413
HpySE526I ACGT 3 cut(s) 617, 723, 935
Hsp92II CATG 2 cut(s) 704, 1352
HspAI GCGC 3 cut(s) 228, 431, 1235
Ksp22I TGATCA 2 cut(s) 525, 738
Kzo9I GATC 4 cut(s) 525, 715, 738, 1218
LmnI GCTCC 3 cut(s) 92, 250, 295
Lsp1109I GCAGC 2 cut(s) 408, 995
LweI GCATC 5 cut(s) 418, 493, 550, 916, 1205
MaeI CTAG 2 cut(s) 588, 1317
MaeII ACGT 3 cut(s) 617, 723, 935
MaeIII GTNAC 4 cut(s) 613, 799, 931, 1040
MalI GATC 4 cut(s) 527, 717, 740, 1220
MboI GATC 4 cut(s) 525, 715, 738, 1218
MfeI CAATTG 2 cut(s) 362, 1447
MhlI GDGCHC 4 cut(s) 340, 358, 891, 1130
MluCI AATT 8 cut(s) 22, 362, 375, 415, 649, 1050, 1426, 1447
MmeI TCCRAC 2 cut(s) 629, 848
MroXI GAANNNNTTC 2 cut(s) 572, 974
MseI TTAA 5 cut(s) 26, 672, 842, 939, 1313
MspA1I CMGCKG 1 cut(s) 849
MspI CCGG 2 cut(s) 15, 885
MspR9I CCNGG 2 cut(s) 15, 886
MunI CAATTG 2 cut(s) 362, 1447
MvnI CGCG 3 cut(s) 102, 228, 494
MwoI GCNNNNNNNGC 2 cut(s) 430, 539
NciI CCSGG 2 cut(s) 15, 886
NdeII GATC 4 cut(s) 525, 715, 738, 1218
NlaIII CATG 2 cut(s) 704, 1352
NmeAIII GCCGAG 2 cut(s) 201, 1219
NmuCI GTSAC 2 cut(s) 613, 931
NruI TCGCGA 1 cut(s) 102
NspV TTCGAA 2 cut(s) 155, 978
PcsI WCGNNNNNNNCGW 2 cut(s) 407, 1209
PdmI GAANNNNTTC 2 cut(s) 572, 974
PfeI GAWTC 5 cut(s) 152, 157, 697, 821, 949
PkrI GCNGC 4 cut(s) 12, 227, 423, 985
Ppu21I YACGTR 1 cut(s) 724
PsiI TTATAA 1 cut(s) 516
PspPI GGNCC 2 cut(s) 4, 12
PstNI CAGNNNCTG 2 cut(s) 84, 929
RruI TCGCGA 1 cut(s) 102
RsaI GTAC 3 cut(s) 511, 911, 1252
RsaNI GTAC 3 cut(s) 510, 910, 1251
SaqAI TTAA 5 cut(s) 26, 672, 842, 939, 1313
SatI GCNGC 4 cut(s) 11, 226, 422, 984
Sau3AI GATC 4 cut(s) 525, 715, 738, 1218
Sau96I GGNCC 2 cut(s) 4, 12
ScrFI CCNGG 2 cut(s) 15, 886
SduI GDGCHC 4 cut(s) 340, 358, 891, 1130
SfaNI GCATC 5 cut(s) 418, 493, 550, 916, 1205
SfuI TTCGAA 2 cut(s) 155, 978
SpeI ACTAGT 1 cut(s) 1316
Sse9I AATT 8 cut(s) 22, 362, 375, 415, 649, 1050, 1426, 1447
SsiI CCGC 6 cut(s) 10, 18, 226, 381, 444, 849
SspMI CTAG 2 cut(s) 588, 1317
StyD4I CCNGG 2 cut(s) 13, 884
TaaI ACNGT 5 cut(s) 332, 353, 403, 613, 1309
TaiI ACGT 3 cut(s) 620, 726, 938
TaqI TCGA 7 cut(s) 155, 240, 369, 576, 978, 1104, 1161
TasI AATT 8 cut(s) 22, 362, 375, 415, 649, 1050, 1426, 1447
TatI WGTACW 2 cut(s) 509, 1250
TauI GCSGC 2 cut(s) 13, 228
TfiI GAWTC 5 cut(s) 152, 157, 697, 821, 949
Tru1I TTAA 5 cut(s) 26, 672, 842, 939, 1313
Tru9I TTAA 5 cut(s) 26, 672, 842, 939, 1313
TseFI GTSAC 2 cut(s) 613, 931
TseI GCWGC 2 cut(s) 421, 983
Tsp45I GTSAC 2 cut(s) 613, 931
TspDTI ATGAA 8 cut(s) 65, 284, 387, 594, 689, 1134, 1206, 1337
TspGWI ACGGA 4 cut(s) 86, 377, 412, 1025
VneI GTGCAC 2 cut(s) 354, 1126
XapI RAATTY 4 cut(s) 22, 375, 415, 649
XmiI GTMKAC 1 cut(s) 728
XmnI GAANNNNTTC 2 cut(s) 572, 974
XspI CTAG 2 cut(s) 588, 1317
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.