Basic Information

Type: gene

Biological Identity

Species

pyrus_communis

Chromosome

Chr5

Orthogroup ID

OG0010070

Physical Location & Seq

Genomic Coordinates Forward (+)

4391093 .. 4392797

Gene Structure 1705 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

pycom05g03840.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1215 bp

ATGGCGTCTCGGTCACTATTGCTCTCTCTCAGACGGAGCAGCGGCGTAAGCAATGTTAGCGTTGGTGTTGGTGTTGGTTTTGGAAGATTTCTGTCGTCGGGAGGAGCAGGTGCTGTGAATACTGAGTTTGTCCAAGATTCTGAGGGAAGTGACGACCTCAAGAGCAGAGTGTTGAGGCTCAGGCAGCCCAAGCGAAGCGCCACCAACGTCCTTCAGAGATGGGTCTCCGAAGGCAACCAAATTTCCATCTCGGACCTCCGCCAGATCTCTAAAGACCTCAGCAAGTCTCACCGTTACAAGCACGCCCTCGAGATATCCGAGTGGATGGTCAGCCATAATGAATTTGAGTTATCGGATTCTGACTATGCAGTCCGCATCGTCTTGATGACCAAAGTTTTTGGCATCGATGCAGCAGAGCGCTACTTTGAAAGTCTATCTCTTACTGCAAAAACAAATGAGACATATACTGCTCTCCTCCACTCTTATGCTGGGGCAAAATTGACGGAAAAGGCTGAGAACCTCTATGAGAGAATAAAAGGATCTAACCTGTCCCTGAGTGCCCTTACTTACAATGAGATGATGACTATGTACATGTCAGTGGGGCAAGTTGAGAAGGTCTCTTTAGTTGTGGAAGATCTGAAACGGCACAAGGTTGAACCAGATATCTTCACATACAATCTTTGGATTAGTTCATTTGCTGCAACTCTAAAGATTGATCAGCTTCGACAGATTGTAGTTGAAATGAGACATGATCCTGGTTTCGGTGAAGGCTGGGAGAGATATATTAACCTGACAAATATATATGTTAGTGTTGGGCATCTTGTGAATGCAGAGTCCGACACTCTAGTAGTTGAAGCTGAGAAAGGAATCACACAAAGAGAATGGATTACGTACGACTTTCTCATTATTCTGCATGCTGGTTTAGGAAATAAGGAAAGGATTGATCAGATATGGAAATCCTTGATAATGACTGGACAAAAGATGACAAGTAGAAACTATATTTGCATTCTTTCTTCATATCTAATGCTCGGGCAATTAAAAGAAGTCGGAGAAGTTATTGATCGGTGGAAGCAATCAACTACTACAGATTTTTCTGTTACTGCCTGCAGTAGGGTTTTGCATGCTTTCACAGACATTGGGTTGACTGAAAAGGCCCACAACTTCAAGGCGATTCTGATTCAGAAGAATTGTGATACTTCAAATTCGTTAGAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 PPR_3

Protein Analysis

405

Amino Acids

45.55

Weight (kDa)

6.58

Isoelectric Point (pI)

38.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	178 - 232	1.1e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	188 - 233	1.6e-08	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0010070)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G09450
fragaria_vesca	FvH4_2g11810 FvH4_2g11810
malus_domestica	MD05G1046600.v1.1 MD10G1053300.v1.1
prunus_persica	Prupe.8G066700_v2.0.a1 Prupe.8G066700_v2.0.a1 Prupe.8G066700_v2.0.a1
pyrus_communis	pycom05g03840 pycom10g04040
rosa_chinensis	RchiOBHm_Chr6g0271371
rosa_laevigata	RLG00000013730
rosa_multiflora	Rmu_sc0004866.1_g000034
rosa_roxburghii	Rroxscaffold_7G00197060
rosa_rugosa	Rorug06G0060700 Rorug06G0060700
rosa_samantha	Rh6AG179800 Rh6BG183100 Rh6CG179700 Rh6DG171400
rosa_wichuraiana	Rw6G015450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	98
AasI	GACNNNNNNGTC	1 cut(s)	368
Acc36I	ACCTGC	1 cut(s)	98
AciI	CCGC	3 cut(s)	42, 259, 373
AclWI	GGATC	2 cut(s)	547, 746
AcsI	RAATTY	3 cut(s)	240, 341, 1201
AcuI	CTGAAG	1 cut(s)	197
AcyI	GRCGYC	1 cut(s)	5
AfaI	GTAC	2 cut(s)	590, 893
AfeI	AGCGCT	1 cut(s)	419
AfiI	CCNNNNNNNGG	2 cut(s)	761, 1110
AflIII	ACRYGT	1 cut(s)	591
AgsI	TTSAA	6 cut(s)	428, 656, 740, 854, 1165, 1200
AjnI	CCWGG	1 cut(s)	754
AluBI	AGCT	2 cut(s)	721, 857
AluI	AGCT	2 cut(s)	721, 857
Alw26I	GTCTC	6 cut(s)	12, 229, 291, 452, 622, 739
AlwI	GGATC	2 cut(s)	547, 746
AlwNI	CAGNNNCTG	1 cut(s)	113
Ama87I	CYCGRG	2 cut(s)	308, 1028
Aor51HI	AGCGCT	1 cut(s)	419
AoxI	GGCC	1 cut(s)	1152
ApeKI	GCWGC	4 cut(s)	39, 184, 410, 698
ApoI	RAATTY	3 cut(s)	240, 341, 1201
AspLEI	GCGC	2 cut(s)	200, 420
AspS9I	GGNCC	2 cut(s)	253, 1153
AsuHPI	GGTGA	2 cut(s)	281, 776
AvaI	CYCGRG	2 cut(s)	308, 1028
AvaII	GGWCC	1 cut(s)	253
BaeGI	GKGCMC	1 cut(s)	562
BbvCI	CCTCAGC	1 cut(s)	278
BbvI	GCAGC	4 cut(s)	51, 196, 422, 685
BccI	CCATC	3 cut(s)	213, 254, 319
BceAI	ACGGC	1 cut(s)	659
BciT130I	CCWGG	1 cut(s)	756
BclI	TGATCA	2 cut(s)	715, 943
BcoDI	GTCTC	6 cut(s)	12, 229, 291, 452, 622, 739
BfaI	CTAG	1 cut(s)	845
BfmI	CTRYAG	2 cut(s)	1083, 1105
BfoI	RGCGCY	2 cut(s)	201, 421
BfuAI	ACCTGC	1 cut(s)	98
BglII	AGATCT	2 cut(s)	264, 634
BisI	GCNGC	5 cut(s)	40, 43, 185, 411, 699
BlsI	GCNGC	5 cut(s)	41, 44, 186, 412, 700
Bme1390I	CCNGG	1 cut(s)	756
Bme18I	GGWCC	1 cut(s)	253
BmeT110I	CYCGRG	2 cut(s)	308, 1028
BmgT120I	GGNCC	2 cut(s)	253, 1153
BmrFI	CCNGG	1 cut(s)	756
BmsI	GCATC	4 cut(s)	384, 397, 411, 826
BplI	GAGNNNNNCTC	2 cut(s)	602, 634
Bpu10I	CCTNAGC	2 cut(s)	179, 278
BpuEI	CTTGAG	1 cut(s)	143
Bsa29I	ATCGAT	1 cut(s)	405
BsaAI	YACGTR	1 cut(s)	891
BsaHI	GRCGYC	1 cut(s)	5
BsaI	GGTCTC	2 cut(s)	229, 622
Bsc4I	CCNNNNNNNGG	2 cut(s)	761, 1110
Bse1I	ACTGG	1 cut(s)	976
Bse3DI	GCAATG	1 cut(s)	58
BseBI	CCWGG	1 cut(s)	756
BseCI	ATCGAT	1 cut(s)	405
BseGI	GGATG	1 cut(s)	330
BseLI	CCNNNNNNNGG	2 cut(s)	761, 1110
BseMI	GCAATG	1 cut(s)	58
BseMII	CTCAG	8 cut(s)	43, 114, 132, 193, 292, 504, 545, 849
BseNI	ACTGG	1 cut(s)	976
BseRI	GAGGAG	2 cut(s)	117, 464
BseSI	GKGCMC	1 cut(s)	562
BseXI	GCAGC	4 cut(s)	51, 196, 422, 685
BseYI	CCCAGC	2 cut(s)	488, 771
BshFI	GGCC	1 cut(s)	1154
BshVI	ATCGAT	1 cut(s)	405
BsiHKCI	CYCGRG	2 cut(s)	308, 1028
BsiWI	CGTACG	1 cut(s)	891
BslFI	GGGAC	1 cut(s)	535
BslI	CCNNNNNNNGG	2 cut(s)	761, 1110
BsmAI	GTCTC	6 cut(s)	12, 229, 291, 452, 622, 739
BsmBI	CGTCTC	1 cut(s)	12
BsmFI	GGGAC	1 cut(s)	535
BsmI	GAATGC	2 cut(s)	832, 1005
BsnI	GGCC	1 cut(s)	1154
Bso31I	GGTCTC	2 cut(s)	229, 622
BsoBI	CYCGRG	2 cut(s)	308, 1028
Bsp1286I	GDGCHC	1 cut(s)	562
Bsp1407I	TGTACA	1 cut(s)	588
Bsp143I	GATC	7 cut(s)	264, 539, 634, 715, 751, 943, 1060
BspACI	CCGC	3 cut(s)	42, 259, 373
BspANI	GGCC	1 cut(s)	1154
BspCNI	CTCAG	8 cut(s)	42, 115, 133, 192, 291, 505, 546, 850
BspDI	ATCGAT	1 cut(s)	405
BspMAI	CTGCAG	1 cut(s)	1109
BspMI	ACCTGC	1 cut(s)	98
BspPI	GGATC	2 cut(s)	547, 746
BspTNI	GGTCTC	2 cut(s)	229, 622
BsrDI	GCAATG	1 cut(s)	58
BsrGI	TGTACA	1 cut(s)	588
BsrI	ACTGG	1 cut(s)	976
BssMI	GATC	7 cut(s)	264, 539, 634, 715, 751, 943, 1060
BssNI	GRCGYC	1 cut(s)	5
Bst2UI	CCWGG	1 cut(s)	756
Bst4CI	ACNGT	1 cut(s)	293
BstACI	GRCGYC	1 cut(s)	5
BstAUI	TGTACA	1 cut(s)	588
BstBAI	YACGTR	1 cut(s)	891
BstC8I	GCNNGC	4 cut(s)	303, 915, 1105, 1122
BstDEI	CTNAG	8 cut(s)	29, 123, 141, 179, 278, 513, 554, 858
BstENI	CCTNNNNNAGG	1 cut(s)	1108
BstF5I	GGATG	1 cut(s)	330
BstH2I	RGCGCY	2 cut(s)	201, 421
BstHHI	GCGC	2 cut(s)	200, 420
BstKTI	GATC	7 cut(s)	267, 542, 637, 718, 754, 946, 1063
BstMAI	GTCTC	6 cut(s)	12, 229, 291, 452, 622, 739
BstMBI	GATC	7 cut(s)	264, 539, 634, 715, 751, 943, 1060
BstMWI	GCNNNNNNNGC	4 cut(s)	48, 57, 184, 190
BstNI	CCWGG	1 cut(s)	756
BstNSI	RCATGY	3 cut(s)	595, 917, 1124
BstSCI	CCNGG	1 cut(s)	754
BstSFI	CTRYAG	2 cut(s)	1083, 1105
BstSLI	GKGCMC	1 cut(s)	562
BstSNI	TACGTA	1 cut(s)	891
BstV1I	GCAGC	4 cut(s)	51, 196, 422, 685
BstX2I	RGATCY	3 cut(s)	264, 539, 634
BstYI	RGATCY	3 cut(s)	264, 539, 634
Bsu15I	ATCGAT	1 cut(s)	405
BsuRI	GGCC	1 cut(s)	1154
BsuTUI	ATCGAT	1 cut(s)	405
BtsCI	GGATG	1 cut(s)	330
BtsIMutI	CAGTG	1 cut(s)	603
BveI	ACCTGC	1 cut(s)	98
Cac8I	GCNNGC	4 cut(s)	303, 915, 1105, 1122
CaiI	CAGNNNCTG	1 cut(s)	113
CfoI	GCGC	2 cut(s)	200, 420
Cfr13I	GGNCC	2 cut(s)	253, 1153
ClaI	ATCGAT	1 cut(s)	405
Csp6I	GTAC	2 cut(s)	589, 892
CviAII	CATG	4 cut(s)	592, 749, 914, 1121
CviJI	RGCY	8 cut(s)	178, 187, 333, 512, 721, 771, 857, 1154
CviKI_1	RGCY	8 cut(s)	178, 187, 333, 512, 721, 771, 857, 1154
CviQI	GTAC	2 cut(s)	589, 892
DdeI	CTNAG	8 cut(s)	29, 123, 141, 179, 278, 513, 554, 858
DpnI	GATC	7 cut(s)	266, 541, 636, 717, 753, 945, 1062
DpnII	GATC	7 cut(s)	264, 539, 634, 715, 751, 943, 1060
DrdI	GACNNNNNNGTC	1 cut(s)	368
DseDI	GACNNNNNNGTC	1 cut(s)	368
EciI	GGCGGA	1 cut(s)	248
Eco105I	TACGTA	1 cut(s)	891
Eco31I	GGTCTC	2 cut(s)	229, 622
Eco32I	GATATC	2 cut(s)	315, 664
Eco47I	GGWCC	1 cut(s)	253
Eco47III	AGCGCT	1 cut(s)	419
Eco57I	CTGAAG	1 cut(s)	197
Eco88I	CYCGRG	2 cut(s)	308, 1028
EcoNI	CCTNNNNNAGG	1 cut(s)	1108
EcoRII	CCWGG	1 cut(s)	754
EcoRV	GATATC	2 cut(s)	315, 664
Esp3I	CGTCTC	1 cut(s)	12
FaeI	CATG	4 cut(s)	595, 752, 917, 1124
FaqI	GGGAC	1 cut(s)	535
FatI	CATG	4 cut(s)	591, 748, 913, 1120
FbaI	TGATCA	2 cut(s)	715, 943
Fnu4HI	GCNGC	5 cut(s)	40, 43, 185, 411, 699
FokI	GGATG	1 cut(s)	337
Fsp4HI	GCNGC	5 cut(s)	40, 43, 185, 411, 699
FspBI	CTAG	1 cut(s)	845
GlaI	GCGC	2 cut(s)	199, 419
GluI	GCNGC	5 cut(s)	40, 43, 185, 411, 699
GsaI	CCCAGC	2 cut(s)	492, 775
HaeII	RGCGCY	2 cut(s)	201, 421
HaeIII	GGCC	1 cut(s)	1154
HhaI	GCGC	2 cut(s)	200, 420
Hin1I	GRCGYC	1 cut(s)	5
Hin1II	CATG	4 cut(s)	595, 752, 917, 1124
Hin6I	GCGC	2 cut(s)	198, 418
HinP1I	GCGC	2 cut(s)	198, 418
HincII	GTYRAC	1 cut(s)	1143
HindII	GTYRAC	1 cut(s)	1143
HinfI	GANTC	6 cut(s)	137, 356, 833, 867, 1171, 1177
HphI	GGTGA	2 cut(s)	281, 776
Hpy166II	GTNNAC	1 cut(s)	1143
Hpy188III	TCNNGA	4 cut(s)	99, 160, 310, 382
Hpy8I	GTNNAC	1 cut(s)	1143
Hpy99I	CGWCG	1 cut(s)	100
HpyAV	CCTTC	4 cut(s)	221, 224, 607, 761
HpyCH4III	ACNGT	1 cut(s)	293
HpyCH4IV	ACGT	2 cut(s)	207, 890
HpyCH4V	TGCA	9 cut(s)	368, 410, 446, 701, 830, 913, 1005, 1107, 1120
HpyF10VI	GCNNNNNNNGC	4 cut(s)	48, 57, 184, 190
HpyF3I	CTNAG	8 cut(s)	29, 123, 141, 179, 278, 513, 554, 858
HpySE526I	ACGT	2 cut(s)	207, 890
Hsp92I	GRCGYC	1 cut(s)	5
Hsp92II	CATG	4 cut(s)	595, 752, 917, 1124
HspAI	GCGC	2 cut(s)	198, 418
Ksp22I	TGATCA	2 cut(s)	715, 943
Kzo9I	GATC	7 cut(s)	264, 539, 634, 715, 751, 943, 1060
LmnI	GCTCC	2 cut(s)	36, 104
Lsp1109I	GCAGC	4 cut(s)	51, 196, 422, 685
LweI	GCATC	4 cut(s)	384, 397, 411, 826
MaeI	CTAG	1 cut(s)	845
MaeII	ACGT	2 cut(s)	207, 890
MaeIII	GTNAC	4 cut(s)	12, 149, 293, 1096
MalI	GATC	7 cut(s)	266, 541, 636, 717, 753, 945, 1062
MboI	GATC	7 cut(s)	264, 539, 634, 715, 751, 943, 1060
MboII	GAAGA	5 cut(s)	96, 644, 658, 1005, 1195
MflI	RGATCY	3 cut(s)	264, 539, 634
MhlI	GDGCHC	1 cut(s)	562
MluCI	AATT	6 cut(s)	240, 341, 497, 1034, 1186, 1201
MlyI	GAGTC	1 cut(s)	842
MmeI	TCCRAC	2 cut(s)	861, 1027
MnlI	CCTC	9 cut(s)	95, 136, 167, 168, 266, 287, 317, 485, 530
MseI	TTAA	2 cut(s)	786, 1037
MslI	CAYNNNNRTG	2 cut(s)	483, 596
MspA1I	CMGCKG	1 cut(s)	42
MspR9I	CCNGG	1 cut(s)	756
Mva1269I	GAATGC	2 cut(s)	832, 1005
MvaI	CCWGG	1 cut(s)	756
MwoI	GCNNNNNNNGC	4 cut(s)	48, 57, 184, 190
NdeII	GATC	7 cut(s)	264, 539, 634, 715, 751, 943, 1060
NlaIII	CATG	4 cut(s)	595, 752, 917, 1124
NmuCI	GTSAC	2 cut(s)	12, 149
NspI	RCATGY	3 cut(s)	595, 917, 1124
PaeI	GCATGC	2 cut(s)	917, 1124
PaeR7I	CTCGAG	1 cut(s)	308
PaqCI	CACCTGC	1 cut(s)	98
PciI	ACATGT	1 cut(s)	591
PcsI	WCGNNNNNNNCGW	1 cut(s)	315
PctI	GAATGC	2 cut(s)	832, 1005
PfeI	GAWTC	5 cut(s)	137, 356, 867, 1171, 1177
Pfl23II	CGTACG	1 cut(s)	891
PkrI	GCNGC	5 cut(s)	41, 44, 186, 412, 700
PleI	GAGTC	1 cut(s)	841
PpsI	GAGTC	1 cut(s)	841
Ppu21I	YACGTR	1 cut(s)	891
PscI	ACATGT	1 cut(s)	591
Psp6I	CCWGG	1 cut(s)	754
PspFI	CCCAGC	2 cut(s)	488, 771
PspGI	CCWGG	1 cut(s)	754
PspLI	CGTACG	1 cut(s)	891
PspPI	GGNCC	2 cut(s)	253, 1153
PstI	CTGCAG	1 cut(s)	1109
PstNI	CAGNNNCTG	1 cut(s)	113
PsuI	RGATCY	3 cut(s)	264, 539, 634
RsaI	GTAC	2 cut(s)	590, 893
RsaNI	GTAC	2 cut(s)	589, 892
RseI	CAYNNNNRTG	2 cut(s)	483, 596
SaqAI	TTAA	2 cut(s)	786, 1037
SatI	GCNGC	5 cut(s)	40, 43, 185, 411, 699
Sau3AI	GATC	7 cut(s)	264, 539, 634, 715, 751, 943, 1060
Sau96I	GGNCC	2 cut(s)	253, 1153
SchI	GAGTC	1 cut(s)	842
ScrFI	CCNGG	1 cut(s)	756
SduI	GDGCHC	1 cut(s)	562
SfaNI	GCATC	4 cut(s)	384, 397, 411, 826
SfcI	CTRYAG	2 cut(s)	1083, 1105
Sfr274I	CTCGAG	1 cut(s)	308
SinI	GGWCC	1 cut(s)	253
SlaI	CTCGAG	1 cut(s)	308
SmiMI	CAYNNNNRTG	2 cut(s)	483, 596
SmlI	CTYRAG	2 cut(s)	158, 308
SmoI	CTYRAG	2 cut(s)	158, 308
SnaBI	TACGTA	1 cut(s)	891
SphI	GCATGC	2 cut(s)	917, 1124
Sse9I	AATT	6 cut(s)	240, 341, 497, 1034, 1186, 1201
SsiI	CCGC	3 cut(s)	42, 259, 373
SspMI	CTAG	1 cut(s)	845
StyD4I	CCNGG	1 cut(s)	754
TaaI	ACNGT	1 cut(s)	293
TaiI	ACGT	2 cut(s)	210, 893
TaqI	TCGA	3 cut(s)	309, 405, 724
TasI	AATT	6 cut(s)	240, 341, 497, 1034, 1186, 1201
TatI	WGTACW	1 cut(s)	588
TauI	GCSGC	1 cut(s)	45
TfiI	GAWTC	5 cut(s)	137, 356, 867, 1171, 1177
Tru1I	TTAA	2 cut(s)	786, 1037
Tru9I	TTAA	2 cut(s)	786, 1037
TscAI	CASTG	1 cut(s)	603
TseFI	GTSAC	2 cut(s)	12, 149
TseI	GCWGC	4 cut(s)	39, 184, 410, 698
Tsp45I	GTSAC	2 cut(s)	12, 149
TspDTI	ATGAA	3 cut(s)	354, 681, 1005
TspGWI	ACGGA	2 cut(s)	49, 518
TspRI	CASTG	1 cut(s)	603
VpaK11BI	GGWCC	1 cut(s)	253
XagI	CCTNNNNNAGG	1 cut(s)	1108
XapI	RAATTY	3 cut(s)	240, 341, 1201
XceI	RCATGY	3 cut(s)	595, 917, 1124
XcmI	CCANNNNNNNNNTGG	1 cut(s)	485
XhoI	CTCGAG	1 cut(s)	308
XspI	CTAG	1 cut(s)	845

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.