Basic Information

Type: gene

Biological Identity

Species

pyrus_communis

Chromosome

Chr1

Orthogroup ID

OG0003384

Physical Location & Seq

Genomic Coordinates Forward (+)

12886732 .. 12888132

Gene Structure 1401 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

pycom01g11900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1401 bp

ATGCAGCTTAACGGATATATCCCGGATACCATTGTTTATAATTCTCTACTAGATGGGTTATTCAAGGCTAGGAAGGTTGATGGCTGCCAGTTATTTGAGAAAATGAAAATGGTTCAGAATGGGGTGAGAGCCTTGAGGTGGCCGTATAATATTCTCATGGATGGTTTGTTCAGGAATGGAAGGGCAGAGGCTGCGTACACACTATTTTGTGACTTAAAGAAGAAGGGTCAGTTTGTTGATGGTGTAACATATAGCATTGTGGTTTTGCAACTTTGTAAGGACGGTCTGCTTGAGGAAGCACTAGGATTGGTGGAAGAAATGGAAAGGAGAGGCTTTACTGTTAATTTAATTACTGTATTGTCACTTGTGATTGGGCTGTATAAAGAAGGTCGGTGGGATTGGACGGACAAGCTCATGAAGCACATTAGAGATGGTAACCTAGTGCCGAGTGTTCTTAAATGGAAGGTTGATATGGAGGCTTCACTGAAAAATCTGCAGAGAAATAGAAAGGATATTACACCATTGTTCCCAATTAAAGGCGACTTGAGTGAGATTATGAGTTTAATAAAGTCTGCTGAATCAACAATGGATGCAGACCTAGATTCAGAGGCTGCCAGGGTTAAAGAAGATGATAAGAATTTGTCCACCGATACTGATCAGTGGTCATCATCTCCACATATGGATCAATTGGCTAATCAACTTAAGTCCACCAACCACTCCTCGCAGCTGTTTTCATTGTCCAAGGGGCAAAGAGTTCAAGCGAATGGGGAAAGCACTTTTGATATTGACATGGTTAATACCTTTTTGTCCTTATTCTTGGCCAAGGGAAAGCTAAGAATAGCATGCAAATTGTTTGAGATTTTCAGTGATCTTGGTGCAAACCCCATGAGTTATACTTATAATTCTATGATGAGTTCGTTCGTCAAGAAGGGCTACTTCAATGAGGCATGGGGTGTACTCAATGAAATGGGAGAAAAGGTCTGCCCCACAGACATGGCTACATACAATGTGATAATTCAAGGCTTGGGGAAGTTGGGTAGAGCTGATCTAGGGAGTTCTGTCCTGGATAAGCTAATTAAGCAGGGTGGTTATCTTGACGTGGTTATGTACAACACCTTGATTAATGCACTAGGGAAGGCTAGCAGGATTAATGAAGTAAACAAGCTCTTTGAGCAGATGAAGAGTAGTGGAATAAATCCTGATGTTGTCACTTTTAATACACTTATTGAAGTTCATAGCAAAGCAGGTCGGCTAAAAGATGCATATAAGTTTTTGAAAATGATACTCGATGCAGGCTGCACCCTGAACCATGTTACTGACACGACTTTAGATTTTCTTGGCAAGGAGATTGAGAAAATGAGGTACCAGAAGGCATCCATGGTGCGCAATAAGGATGACTGA

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

467

Amino Acids

52.49

Weight (kDa)

8.02

Isoelectric Point (pI)

28.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	49 - 93	6.3e-11	PPR repeat family
PPR_1	PF12854	76 - 108	2.1e-06	PPR repeat
PPR	PF01535	82 - 112	3.5e-06	PPR repeat
PPR_2	PF13041	297 - 344	6.9e-13	PPR repeat family
PPR	PF01535	298 - 326	1.4e-06	PPR repeat
TPR_24	PF23276	343 - 428	6.3e-06	Fungal tetratrico peptide repeats
PPR_3	PF13812	353 - 412	2.1e-10	Pentatricopeptide repeat domain
PPR_1	PF12854	365 - 394	3.9e-06	PPR repeat
PPR_2	PF13041	366 - 409	4.6e-15	PPR repeat family
PPR	PF01535	368 - 398	2.2e-07	PPR repeat
PPR_1	PF12854	397 - 426	2.6e-09	PPR repeat
PPR_2	PF13041	400 - 443	4.4e-09	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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Align Labels (Cladogram)

Image

Tree File

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Orthologous Genes (Group: OG0003384)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G01570
fragaria_vesca	FvH4_7g18170
malus_domestica	MD01G1095900.v1.1 MD01G1096200.v1.1 MD01G1096300.v1.1 MD01G1097600.v1.1 MD01G1131700.v1.1
prunus_persica	Prupe.2G203600_v2.0.a1
pyrus_communis	pycom01g11790 pycom01g11820 pycom01g11830 pycom01g11890 pycom01g11900 pycom01g11920 pycom01g11930 pycom01g12020 pycom01g12110 pycom01g12190 pycom01g12290 pycom01g12360 pycom01g12370 pycom01g12440 pycom01g12450 pycom01g12460 pycom01g12490
rosa_chinensis	RchiOBHm_Chr1g0361811
rosa_laevigata	RLG00000027702
rosa_multiflora	Rmu_co8192272.1_g000001 Rmu_ssc0000124.1_g000020
rosa_roxburghii	Rroxscaffold_4G00294690 Rroxscaffold_5G00338610
rosa_rugosa	Rorug01G0291500
rosa_samantha	Rh1AG302000 Rh1BG265000 Rh1DG294900
rosa_wichuraiana	Rw1G026760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	39, 900
Acc16I	TGCGCA	1 cut(s)	1385
Acc36I	ACCTGC	1 cut(s)	1235
Acc65I	GGTACC	1 cut(s)	1362
AccB1I	GGYRCC	1 cut(s)	1362
AclWI	GGATC	1 cut(s)	690
AcoI	YGGCCR	2 cut(s)	140, 819
AcsI	RAATTY	1 cut(s)	637
AfaI	GTAC	4 cut(s)	197, 957, 1109, 1364
AfiI	CCNNNNNNNGG	2 cut(s)	138, 536
AflII	CTTAAG	1 cut(s)	701
AgsI	TTSAA	6 cut(s)	64, 758, 940, 1019, 1229, 1276
AjiI	CACGTC	1 cut(s)	1099
AjnI	CCWGG	2 cut(s)	614, 1062
AloI	GAACNNNNNNTCC	2 cut(s)	152, 184
AluBI	AGCT	7 cut(s)	7, 412, 727, 832, 1043, 1072, 1165
AluI	AGCT	7 cut(s)	7, 412, 727, 832, 1043, 1072, 1165
AlwI	GGATC	1 cut(s)	690
AlwNI	CAGNNNCTG	2 cut(s)	191, 611
AoxI	GGCC	2 cut(s)	140, 819
ApeKI	GCWGC	6 cut(s)	4, 84, 191, 611, 724, 1296
ApoI	RAATTY	1 cut(s)	637
AseI	ATTAAT	2 cut(s)	1122, 1149
Asp718I	GGTACC	1 cut(s)	1362
AspLEI	GCGC	1 cut(s)	1386
AsuC2I	CCSGG	1 cut(s)	23
AsuHPI	GGTGA	1 cut(s)	136
AsuNHI	GCTAGC	1 cut(s)	1139
BaeI	ACNNNNGTAYC	2 cut(s)	18, 51
BalI	TGGCCA	1 cut(s)	821
BanI	GGYRCC	1 cut(s)	1362
BbvI	GCAGC	6 cut(s)	16, 71, 178, 598, 736, 1283
BccI	CCATC	5 cut(s)	47, 74, 155, 233, 425
BceAI	ACGGC	1 cut(s)	127
BciT130I	CCWGG	2 cut(s)	616, 1064
BciVI	GTATCC	1 cut(s)	19
BclI	TGATCA	1 cut(s)	655
BcnI	CCSGG	1 cut(s)	23
BfaI	CTAG	8 cut(s)	50, 69, 302, 440, 599, 1049, 1130, 1140
BfmI	CTRYAG	1 cut(s)	494
BfrI	CTTAAG	1 cut(s)	701
BfuAI	ACCTGC	1 cut(s)	1235
BfuI	GTATCC	1 cut(s)	19
BisI	GCNGC	6 cut(s)	5, 85, 192, 612, 725, 1297
BlsI	GCNGC	6 cut(s)	6, 86, 193, 613, 726, 1298
Bme1390I	CCNGG	3 cut(s)	23, 616, 1064
BmgBI	CACGTC	1 cut(s)	1099
BmiI	GGNNCC	1 cut(s)	1364
BmrFI	CCNGG	3 cut(s)	23, 616, 1064
BmsI	GCATC	4 cut(s)	580, 1249, 1279, 1382
BmtI	GCTAGC	1 cut(s)	1143
BpuEI	CTTGAG	3 cut(s)	154, 311, 565
BpuMI	CCSGG	1 cut(s)	23
BsaBI	GATNNNNATC	1 cut(s)	654
BsaJI	CCNNGG	4 cut(s)	615, 741, 822, 1377
BsaXI	ACNNNNNCTCC	2 cut(s)	963, 993
Bsc4I	CCNNNNNNNGG	2 cut(s)	138, 536
Bse1I	ACTGG	1 cut(s)	88
Bse8I	GATNNNNATC	1 cut(s)	654
BseBI	CCWGG	2 cut(s)	616, 1064
BseDI	CCNNGG	4 cut(s)	615, 741, 822, 1377
BseGI	GGATG	4 cut(s)	166, 595, 1373, 1399
BseJI	GATNNNNATC	1 cut(s)	654
BseLI	CCNNNNNNNGG	2 cut(s)	138, 536
BseNI	ACTGG	1 cut(s)	88
BseRI	GAGGAG	1 cut(s)	709
BseXI	GCAGC	6 cut(s)	16, 71, 178, 598, 736, 1283
BsgI	GTGCAG	1 cut(s)	1282
BshFI	GGCC	2 cut(s)	142, 821
BshNI	GGYRCC	1 cut(s)	1362
BsiSI	CCGG	1 cut(s)	23
BslI	CCNNNNNNNGG	2 cut(s)	138, 536
BsnI	GGCC	2 cut(s)	142, 821
Bsp1407I	TGTACA	1 cut(s)	1107
Bsp143I	GATC	4 cut(s)	655, 682, 868, 1045
Bsp19I	CCATGG	1 cut(s)	1377
BspANI	GGCC	2 cut(s)	142, 821
BspHI	TCATGA	1 cut(s)	414
BspLI	GGNNCC	1 cut(s)	1364
BspMAI	CTGCAG	1 cut(s)	498
BspMI	ACCTGC	1 cut(s)	1235
BspOI	GCTAGC	1 cut(s)	1143
BspPI	GGATC	1 cut(s)	690
BspT107I	GGYRCC	1 cut(s)	1362
BspTI	CTTAAG	1 cut(s)	701
BsrGI	TGTACA	1 cut(s)	1107
BsrI	ACTGG	1 cut(s)	88
BssECI	CCNNGG	4 cut(s)	615, 741, 822, 1377
BssMI	GATC	4 cut(s)	655, 682, 868, 1045
BssT1I	CCWWGG	3 cut(s)	741, 822, 1377
Bst2UI	CCWGG	2 cut(s)	616, 1064
Bst4CI	ACNGT	3 cut(s)	284, 340, 355
Bst6I	CTCTTC	1 cut(s)	1175
BstAFI	CTTAAG	1 cut(s)	701
BstAPI	GCANNNNNTGC	1 cut(s)	191
BstAUI	TGTACA	1 cut(s)	1107
BstC8I	GCNNGC	3 cut(s)	844, 1141, 1294
BstDEI	CTNAG	1 cut(s)	833
BstDSI	CCRYGG	1 cut(s)	1377
BstEII	GGTNACC	1 cut(s)	434
BstF5I	GGATG	4 cut(s)	166, 595, 1373, 1399
BstHHI	GCGC	1 cut(s)	1386
BstKTI	GATC	4 cut(s)	658, 685, 871, 1048
BstMBI	GATC	4 cut(s)	655, 682, 868, 1045
BstMWI	GCNNNNNNNGC	4 cut(s)	191, 418, 1078, 1171
BstNI	CCWGG	2 cut(s)	616, 1064
BstNSI	RCATGY	1 cut(s)	846
BstPI	GGTNACC	1 cut(s)	434
BstSCI	CCNGG	3 cut(s)	21, 614, 1062
BstSFI	CTRYAG	1 cut(s)	494
BstV1I	GCAGC	6 cut(s)	16, 71, 178, 598, 736, 1283
BstXI	CCANNNNNNTGG	1 cut(s)	994
BsuI	GTATCC	1 cut(s)	19
BsuRI	GGCC	2 cut(s)	142, 821
BtgI	CCRYGG	1 cut(s)	1377
BtrI	CACGTC	1 cut(s)	1099
BtsCI	GGATG	4 cut(s)	166, 595, 1373, 1399
BtsIMutI	CAGTG	3 cut(s)	482, 665, 871
BveI	ACCTGC	1 cut(s)	1235
Cac8I	GCNNGC	3 cut(s)	844, 1141, 1294
CaiI	CAGNNNCTG	2 cut(s)	191, 611
CciI	TCATGA	1 cut(s)	414
CfoI	GCGC	1 cut(s)	1386
Csp6I	GTAC	4 cut(s)	196, 956, 1108, 1363
CviAII	CATG	9 cut(s)	157, 415, 790, 843, 886, 948, 994, 1310, 1378
CviQI	GTAC	4 cut(s)	196, 956, 1108, 1363
DdeI	CTNAG	1 cut(s)	833
DpnI	GATC	4 cut(s)	657, 684, 870, 1047
DpnII	GATC	4 cut(s)	655, 682, 868, 1045
EaeI	YGGCCR	2 cut(s)	140, 819
Eam1104I	CTCTTC	1 cut(s)	1175
EarI	CTCTTC	1 cut(s)	1175
Eco130I	CCWWGG	3 cut(s)	741, 822, 1377
Eco91I	GGTNACC	1 cut(s)	434
EcoO65I	GGTNACC	1 cut(s)	434
EcoRII	CCWGG	2 cut(s)	614, 1062
EcoT14I	CCWWGG	3 cut(s)	741, 822, 1377
EcoT22I	ATGCAT	1 cut(s)	1264
ErhI	CCWWGG	3 cut(s)	741, 822, 1377
FaeI	CATG	9 cut(s)	160, 418, 793, 846, 889, 951, 997, 1313, 1381
FalI	AAGNNNNNCTT	2 cut(s)	920, 952
FatI	CATG	9 cut(s)	156, 414, 789, 842, 885, 947, 993, 1309, 1377
FauNDI	CATATG	1 cut(s)	678
FbaI	TGATCA	1 cut(s)	655
Fnu4HI	GCNGC	6 cut(s)	5, 85, 192, 612, 725, 1297
FokI	GGATG	3 cut(s)	173, 602, 1360
Fsp4HI	GCNGC	6 cut(s)	5, 85, 192, 612, 725, 1297
FspBI	CTAG	8 cut(s)	50, 69, 302, 440, 599, 1049, 1130, 1140
FspI	TGCGCA	1 cut(s)	1385
GlaI	GCGC	1 cut(s)	1385
GluI	GCNGC	6 cut(s)	5, 85, 192, 612, 725, 1297
HaeIII	GGCC	2 cut(s)	142, 821
HapII	CCGG	1 cut(s)	23
HhaI	GCGC	1 cut(s)	1386
Hin1II	CATG	9 cut(s)	160, 418, 793, 846, 889, 951, 997, 1313, 1381
Hin6I	GCGC	1 cut(s)	1384
HinP1I	GCGC	1 cut(s)	1384
HinfI	GANTC	2 cut(s)	578, 602
HpaII	CCGG	1 cut(s)	23
HphI	GGTGA	1 cut(s)	136
Hpy166II	GTNNAC	5 cut(s)	198, 645, 708, 956, 1159
Hpy188I	TCNGA	2 cut(s)	117, 607
Hpy188III	TCNNGA	5 cut(s)	172, 415, 925, 1094, 1199
Hpy8I	GTNNAC	5 cut(s)	198, 645, 708, 956, 1159
HpyAV	CCTTC	8 cut(s)	67, 174, 217, 380, 457, 922, 1129, 1363
HpyCH4III	ACNGT	3 cut(s)	284, 340, 355
HpyCH4IV	ACGT	1 cut(s)	1098
HpyF10VI	GCNNNNNNNGC	4 cut(s)	191, 418, 1078, 1171
HpyF3I	CTNAG	1 cut(s)	833
HpySE526I	ACGT	1 cut(s)	1098
Hsp92II	CATG	9 cut(s)	160, 418, 793, 846, 889, 951, 997, 1313, 1381
HspAI	GCGC	1 cut(s)	1384
KpnI	GGTACC	1 cut(s)	1366
Ksp22I	TGATCA	1 cut(s)	655
Kzo9I	GATC	4 cut(s)	655, 682, 868, 1045
Lsp1109I	GCAGC	6 cut(s)	16, 71, 178, 598, 736, 1283
LweI	GCATC	4 cut(s)	580, 1249, 1279, 1382
MaeI	CTAG	8 cut(s)	50, 69, 302, 440, 599, 1049, 1130, 1140
MaeII	ACGT	1 cut(s)	1098
MaeIII	GTNAC	6 cut(s)	209, 244, 360, 434, 1207, 1312
MalI	GATC	4 cut(s)	657, 684, 870, 1047
MboI	GATC	4 cut(s)	655, 682, 868, 1045
MboII	GAAGA	4 cut(s)	232, 326, 638, 1192
MfeI	CAATTG	1 cut(s)	686
MlsI	TGGCCA	1 cut(s)	821
MluNI	TGGCCA	1 cut(s)	821
MnlI	CCTC	9 cut(s)	129, 181, 286, 323, 469, 601, 730, 937, 1353
Mox20I	TGGCCA	1 cut(s)	821
Mph1103I	ATGCAT	1 cut(s)	1264
MscI	TGGCCA	1 cut(s)	821
MslI	CAYNNNNRTG	1 cut(s)	992
Msp20I	TGGCCA	1 cut(s)	821
MspA1I	CMGCKG	1 cut(s)	727
MspCI	CTTAAG	1 cut(s)	701
MspI	CCGG	1 cut(s)	23
MspR9I	CCNGG	3 cut(s)	23, 616, 1064
MunI	CAATTG	1 cut(s)	686
MvaI	CCWGG	2 cut(s)	616, 1064
MwoI	GCNNNNNNNGC	4 cut(s)	191, 418, 1078, 1171
NciI	CCSGG	1 cut(s)	23
NcoI	CCATGG	1 cut(s)	1377
NdeI	CATATG	1 cut(s)	678
NdeII	GATC	4 cut(s)	655, 682, 868, 1045
NheI	GCTAGC	1 cut(s)	1139
NlaIII	CATG	9 cut(s)	160, 418, 793, 846, 889, 951, 997, 1313, 1381
NlaIV	GGNNCC	1 cut(s)	1364
NmeAIII	GCCGAG	1 cut(s)	471
NmuCI	GTSAC	3 cut(s)	209, 360, 1207
NsbI	TGCGCA	1 cut(s)	1385
NsiI	ATGCAT	1 cut(s)	1264
NspI	RCATGY	1 cut(s)	846
PaeI	GCATGC	1 cut(s)	846
PagI	TCATGA	1 cut(s)	414
PfeI	GAWTC	2 cut(s)	578, 602
PfoI	TCCNGGA	2 cut(s)	21, 1062
PkrI	GCNGC	6 cut(s)	6, 86, 193, 613, 726, 1298
PshBI	ATTAAT	2 cut(s)	1122, 1149
PsiI	TTATAA	2 cut(s)	39, 900
Psp6I	CCWGG	2 cut(s)	614, 1062
PspEI	GGTNACC	1 cut(s)	434
PspGI	CCWGG	2 cut(s)	614, 1062
PspN4I	GGNNCC	1 cut(s)	1364
PstI	CTGCAG	1 cut(s)	498
PstNI	CAGNNNCTG	2 cut(s)	191, 611
PvuII	CAGCTG	1 cut(s)	727
RsaI	GTAC	4 cut(s)	197, 957, 1109, 1364
RsaNI	GTAC	4 cut(s)	196, 956, 1108, 1363
RseI	CAYNNNNRTG	1 cut(s)	992
SatI	GCNGC	6 cut(s)	5, 85, 192, 612, 725, 1297
Sau3AI	GATC	4 cut(s)	655, 682, 868, 1045
ScrFI	CCNGG	3 cut(s)	23, 616, 1064
SfaNI	GCATC	4 cut(s)	580, 1249, 1279, 1382
SfcI	CTRYAG	1 cut(s)	494
SmiMI	CAYNNNNRTG	1 cut(s)	992
SmlI	CTYRAG	4 cut(s)	133, 290, 544, 701
SmoI	CTYRAG	4 cut(s)	133, 290, 544, 701
SphI	GCATGC	1 cut(s)	846
SspI	AATATT	1 cut(s)	151
SspMI	CTAG	8 cut(s)	50, 69, 302, 440, 599, 1049, 1130, 1140
StyD4I	CCNGG	3 cut(s)	21, 614, 1062
StyI	CCWWGG	3 cut(s)	741, 822, 1377
TaaI	ACNGT	3 cut(s)	284, 340, 355
TaiI	ACGT	1 cut(s)	1101
TaqI	TCGA	1 cut(s)	1287
TatI	WGTACW	2 cut(s)	955, 1107
TfiI	GAWTC	2 cut(s)	578, 602
TscAI	CASTG	3 cut(s)	489, 665, 871
TseFI	GTSAC	3 cut(s)	209, 360, 1207
TseI	GCWGC	6 cut(s)	4, 84, 191, 611, 724, 1296
Tsp45I	GTSAC	3 cut(s)	209, 360, 1207
TspDTI	ATGAA	7 cut(s)	119, 431, 723, 978, 1167, 1193, 1223
TspGWI	ACGGA	2 cut(s)	27, 419
TspRI	CASTG	3 cut(s)	489, 665, 871
Vha464I	CTTAAG	1 cut(s)	701
VspI	ATTAAT	2 cut(s)	1122, 1149
XapI	RAATTY	1 cut(s)	637
XceI	RCATGY	1 cut(s)	846
XspI	CTAG	8 cut(s)	50, 69, 302, 440, 599, 1049, 1130, 1140
Zsp2I	ATGCAT	1 cut(s)	1264

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