Basic Information

Type: gene

Biological Identity

Species

pyrus_communis

Chromosome

Chr13

Orthogroup ID

OG0012518

Physical Location & Seq

Genomic Coordinates Forward (+)

3243908 .. 3245102

Gene Structure 1195 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

pycom13g04860.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1155 bp

ATGTCGTCTTCCTCAAACTACTACTGCAACTTACTCAAGCTCTGCAGCCAAGCAGGAAACCATGCGCAAGCCAGAAAGCTCCATTGCCACATTGTCAAAACCGTGACTAATCCCGAAACCTTTCTTCTCAACAATCTCGTTACTACCTACGGCAAATTGGGCAACTTAAGCTATGCCCGCCATGTGTTCGACCAAATCCCTCACCGAACCCTTTTCTCATGGAATGCCATTCTCTCCGTTTACTCTAAATCGGGTCACATTTCTGAGATGCAAGATATCTTCAATCGAATGCCGAGCCGAGATGGGGTGTCTTGGAATTCAGTTATTTCGGGGCATGCGTCATGTGGCTTCGTTGCTGAGGCTGTGAGAGTTTATAGCTTGATGTTAAGGGACGGGCCGGGTAATTTGAACCGGATTACTTTCTCCACGATGCTTGTGCTTTCGTCGAGTCAGGGATGTGTGAACTTGGGTCGACAGCTTCATGGGCAGATAGTGAAATTTGGGTTTGAATCGTATGTATTTGTTGGCAGTCCTTTGGTGGACATGTACTCGAAAGTGGGGTTAATTTTGTATGCAAAGCGGGTTTTTGATTCAATATCAGAGAGAAATGTGGTTATGTATAATACGCTTATCACCGGGCTTTTACGGAGTGGATTGATTGAAGAATCTGAATGTTTGTTTAGTGAAATGCCTGAAAAAGATTCAATTTCGTGGACCACAATGATTAGCGGGCTTAACCAAAATGGGGCAGGCGGAAAAGCACTTGATAAGTTTAGAGAAATGAGATGGCAAGGCTTAAGTATGGATCAATATACATTTGGTAGCGTACTGACCGCATGTGGAAGCCTATCTGCCTTGGAAGAGGGCAAGCAAGTTCATGCGTATATCATTAGGACTGATTTTATAGATAACATCTTTGTTGGTAGTGCTCTTGTTGACATGTATTGCAAATGTAGAAGCATAAAATCTGCGGAAACAGTTTTCAAGAGAATGAGCCGCAAGAATGTAGTATCGTGGACTGCACTGCTTGTGGGTTATGGACAAAATGGGTACAGTGAAGAAGCTGTAAGAATTTTTTGTGATATGCAGAGAAGCGGGGTTGAACCAGATGATTTTACCCTGGGAAGTGTGCCCAGTTCCATGGCCAAGCTCTAG

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

DYW_deaminase PPR PPR_2

Protein Analysis

385

Amino Acids

42.7

Weight (kDa)

8.6

Isoelectric Point (pI)

44.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR	PF01535	103 - 132	5.5e-06	PPR repeat
PPR_2	PF13041	202 - 233	3.1e-06	PPR repeat family
PPR	PF01535	205 - 233	2e-06	PPR repeat
PPR_2	PF13041	234 - 280	4.3e-08	PPR repeat family
PPR_2	PF13041	334 - 374	4e-11	PPR repeat family
PPR	PF01535	337 - 367	7.6e-08	PPR repeat

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

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Orthologous Genes (Group: OG0012518)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G68930 AT1G68930
fragaria_vesca	FvH4_4g28920
malus_domestica	MD13G1054800.v1.1 MD16G1053700.v1.1
prunus_persica	Prupe.1G297100_v2.0.a1
pyrus_communis	pycom13g04860
rosa_chinensis	RchiOBHm_Chr4g0437061
rosa_laevigata	RLG00000006472
rosa_multiflora	Rmu_co8326179.1_g000001 Rmu_sc0008325.1_g000001 Rmu_sc0028518.1_g000001
rosa_roxburghii	Rroxscaffold_5G00378140
rosa_rugosa	Rorug04G0298000
rosa_samantha	Rh4AG352500 Rh4BG361800 Rh4CG376100 Rh4DG356000
rosa_wichuraiana	Rw4G030860

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	66
AccI	GTMKAC	1 cut(s)	472
AciI	CCGC	8 cut(s)	178, 580, 729, 753, 834, 971, 997, 1095
AclWI	GGATC	1 cut(s)	813
AcoI	YGGCCR	1 cut(s)	1143
AcsI	RAATTY	3 cut(s)	316, 497, 1071
AfaI	GTAC	3 cut(s)	548, 828, 1052
AfiI	CCNNNNNNNGG	2 cut(s)	304, 745
AflII	CTTAAG	2 cut(s)	166, 796
AflIII	ACRYGT	2 cut(s)	543, 939
AgsI	TTSAA	8 cut(s)	283, 409, 509, 594, 662, 705, 985, 1103
AjnI	CCWGG	1 cut(s)	1119
AluBI	AGCT	7 cut(s)	40, 79, 171, 378, 478, 1064, 1150
AluI	AGCT	7 cut(s)	40, 79, 171, 378, 478, 1064, 1150
Alw21I	GWGCWC	1 cut(s)	931
AlwI	GGATC	1 cut(s)	813
AoxI	GGCC	2 cut(s)	395, 1143
ApeKI	GCWGC	1 cut(s)	45
ApoI	RAATTY	3 cut(s)	316, 497, 1071
Asp700I	GAANNNNTTC	1 cut(s)	120
AspLEI	GCGC	1 cut(s)	67
AspS9I	GGNCC	2 cut(s)	395, 714
AsuC2I	CCSGG	2 cut(s)	399, 637
AsuHPI	GGTGA	2 cut(s)	194, 625
AvaII	GGWCC	1 cut(s)	714
BaeGI	GKGCMC	1 cut(s)	1134
BalI	TGGCCA	1 cut(s)	1145
Bbv12I	GWGCWC	1 cut(s)	931
BbvCI	CCTCAGC	1 cut(s)	357
BbvI	GCAGC	1 cut(s)	57
BccI	CCATC	2 cut(s)	296, 780
BceAI	ACGGC	1 cut(s)	166
BcgI	CGANNNNNNTGC	2 cut(s)	418, 452
BciT130I	CCWGG	1 cut(s)	1121
BcnI	CCSGG	2 cut(s)	399, 637
BfaI	CTAG	1 cut(s)	1153
BfmI	CTRYAG	1 cut(s)	43
BfrI	CTTAAG	2 cut(s)	166, 796
BisI	GCNGC	2 cut(s)	46, 997
BlsI	GCNGC	2 cut(s)	47, 998
Bme1390I	CCNGG	3 cut(s)	399, 637, 1121
Bme18I	GGWCC	1 cut(s)	714
BmgT120I	GGNCC	2 cut(s)	395, 714
BmrFI	CCNGG	3 cut(s)	399, 637, 1121
BmrI	ACTGGG	1 cut(s)	1128
BmsI	GCATC	2 cut(s)	258, 420
BmuI	ACTGGG	1 cut(s)	1128
Bpu10I	CCTNAGC	1 cut(s)	357
BpuEI	CTTGAG	1 cut(s)	20
BpuMI	CCSGG	2 cut(s)	399, 637
BsaJI	CCNNGG	4 cut(s)	855, 1119, 1120, 1140
BsaWI	WCCGGW	1 cut(s)	411
Bsc4I	CCNNNNNNNGG	2 cut(s)	304, 745
Bse1I	ACTGG	1 cut(s)	1134
Bse3DI	GCAATG	1 cut(s)	82
BseBI	CCWGG	1 cut(s)	1121
BseDI	CCNNGG	4 cut(s)	855, 1119, 1120, 1140
BseGI	GGATG	1 cut(s)	461
BseLI	CCNNNNNNNGG	2 cut(s)	304, 745
BseMI	GCAATG	1 cut(s)	82
BseMII	CTCAG	2 cut(s)	255, 348
BseNI	ACTGG	1 cut(s)	1134
BseSI	GKGCMC	1 cut(s)	1134
BseXI	GCAGC	1 cut(s)	57
BsgI	GTGCAG	1 cut(s)	1005
BshFI	GGCC	2 cut(s)	397, 1145
BsiHKAI	GWGCWC	1 cut(s)	931
BsiSI	CCGG	3 cut(s)	398, 412, 636
BslFI	GGGAC	1 cut(s)	404
BslI	CCNNNNNNNGG	2 cut(s)	304, 745
BsmFI	GGGAC	1 cut(s)	404
BsmI	GAATGC	2 cut(s)	229, 294
BsnI	GGCC	2 cut(s)	397, 1145
Bsp1286I	GDGCHC	2 cut(s)	931, 1134
Bsp143I	GATC	1 cut(s)	805
Bsp19I	CCATGG	1 cut(s)	1140
BspACI	CCGC	8 cut(s)	178, 580, 729, 753, 834, 971, 997, 1095
BspANI	GGCC	2 cut(s)	397, 1145
BspCNI	CTCAG	2 cut(s)	256, 349
BspMAI	CTGCAG	1 cut(s)	47
BspPI	GGATC	1 cut(s)	813
BspTI	CTTAAG	2 cut(s)	166, 796
BsrDI	GCAATG	1 cut(s)	82
BsrI	ACTGG	1 cut(s)	1134
BssECI	CCNNGG	4 cut(s)	855, 1119, 1120, 1140
BssMI	GATC	1 cut(s)	805
BssT1I	CCWWGG	2 cut(s)	855, 1140
Bst2UI	CCWGG	1 cut(s)	1121
Bst4CI	ACNGT	3 cut(s)	103, 979, 1055
Bst6I	CTCTTC	1 cut(s)	855
BstAFI	CTTAAG	2 cut(s)	166, 796
BstC8I	GCNNGC	6 cut(s)	69, 178, 336, 731, 751, 869
BstDEI	CTNAG	2 cut(s)	264, 357
BstDSI	CCRYGG	1 cut(s)	1140
BstF5I	GGATG	1 cut(s)	461
BstHHI	GCGC	1 cut(s)	67
BstKTI	GATC	1 cut(s)	808
BstMBI	GATC	1 cut(s)	805
BstMWI	GCNNNNNNNGC	4 cut(s)	159, 168, 177, 484
BstNI	CCWGG	1 cut(s)	1121
BstNSI	RCATGY	4 cut(s)	338, 547, 840, 943
BstSCI	CCNGG	3 cut(s)	397, 635, 1119
BstSFI	CTRYAG	1 cut(s)	43
BstSLI	GKGCMC	1 cut(s)	1134
BstV1I	GCAGC	1 cut(s)	57
BstXI	CCANNNNNNTGG	1 cut(s)	1141
BsuRI	GGCC	2 cut(s)	397, 1145
BtgI	CCRYGG	1 cut(s)	1140
BtsCI	GGATG	1 cut(s)	461
BtsI	GCAGTG	1 cut(s)	1022
BtsIMutI	CAGTG	2 cut(s)	1022, 1060
Cac8I	GCNNGC	6 cut(s)	69, 178, 336, 731, 751, 869
CfoI	GCGC	1 cut(s)	67
Cfr13I	GGNCC	2 cut(s)	395, 714
CseI	GACGC	1 cut(s)	327
Csp6I	GTAC	3 cut(s)	547, 827, 1051
CspCI	CAANNNNNGTGG	2 cut(s)	415, 450
CviQI	GTAC	3 cut(s)	547, 827, 1051
DdeI	CTNAG	2 cut(s)	264, 357
DpnI	GATC	1 cut(s)	807
DpnII	GATC	1 cut(s)	805
EaeI	YGGCCR	1 cut(s)	1143
Eam1104I	CTCTTC	1 cut(s)	855
EarI	CTCTTC	1 cut(s)	855
EciI	GGCGGA	1 cut(s)	768
Eco130I	CCWWGG	2 cut(s)	855, 1140
Eco32I	GATATC	1 cut(s)	277
Eco47I	GGWCC	1 cut(s)	714
EcoRI	GAATTC	1 cut(s)	316
EcoRII	CCWGG	1 cut(s)	1119
EcoRV	GATATC	1 cut(s)	277
EcoT14I	CCWWGG	2 cut(s)	855, 1140
ErhI	CCWWGG	2 cut(s)	855, 1140
FaqI	GGGAC	1 cut(s)	404
FauI	CCCGC	4 cut(s)	185, 573, 722, 1088
FblI	GTMKAC	1 cut(s)	472
Fnu4HI	GCNGC	2 cut(s)	46, 997
FokI	GGATG	1 cut(s)	468
Fsp4HI	GCNGC	2 cut(s)	46, 997
FspBI	CTAG	1 cut(s)	1153
FspI	TGCGCA	1 cut(s)	66
GlaI	GCGC	1 cut(s)	66
GluI	GCNGC	2 cut(s)	46, 997
HaeIII	GGCC	2 cut(s)	397, 1145
HapII	CCGG	3 cut(s)	398, 412, 636
HgaI	GACGC	1 cut(s)	327
HhaI	GCGC	1 cut(s)	67
Hin6I	GCGC	1 cut(s)	65
HinP1I	GCGC	1 cut(s)	65
HincII	GTYRAC	2 cut(s)	473, 937
HindII	GTYRAC	2 cut(s)	473, 937
HinfI	GANTC	5 cut(s)	448, 509, 590, 665, 701
HpaII	CCGG	3 cut(s)	398, 412, 636
HphI	GGTGA	2 cut(s)	194, 625
Hpy166II	GTNNAC	7 cut(s)	241, 463, 473, 541, 714, 937, 1017
Hpy188I	TCNGA	3 cut(s)	265, 601, 670
Hpy188III	TCNNGA	2 cut(s)	113, 985
Hpy8I	GTNNAC	7 cut(s)	241, 463, 473, 541, 714, 937, 1017
Hpy99I	CGWCG	1 cut(s)	448
HpyCH4III	ACNGT	3 cut(s)	103, 979, 1055
HpyCH4V	TGCA	7 cut(s)	27, 45, 271, 575, 948, 1022, 1087
HpyF10VI	GCNNNNNNNGC	4 cut(s)	159, 168, 177, 484
HpyF3I	CTNAG	2 cut(s)	264, 357
HspAI	GCGC	1 cut(s)	65
Kzo9I	GATC	1 cut(s)	805
LmnI	GCTCC	1 cut(s)	84
Lsp1109I	GCAGC	1 cut(s)	57
LweI	GCATC	2 cut(s)	258, 420
MaeI	CTAG	1 cut(s)	1153
MaeIII	GTNAC	3 cut(s)	103, 139, 254
MalI	GATC	1 cut(s)	807
MboI	GATC	1 cut(s)	805
MboII	GAAGA	5 cut(s)	116, 271, 674, 872, 1070
MhlI	GDGCHC	2 cut(s)	931, 1134
MlsI	TGGCCA	1 cut(s)	1145
MluCI	AATT	7 cut(s)	155, 316, 403, 497, 564, 705, 1071
MluNI	TGGCCA	1 cut(s)	1145
MlyI	GAGTC	1 cut(s)	457
MnlI	CCTC	4 cut(s)	22, 210, 352, 856
Mox20I	TGGCCA	1 cut(s)	1145
MroXI	GAANNNNTTC	1 cut(s)	120
MscI	TGGCCA	1 cut(s)	1145
MseI	TTAA	5 cut(s)	167, 386, 563, 735, 797
Msp20I	TGGCCA	1 cut(s)	1145
MspCI	CTTAAG	2 cut(s)	166, 796
MspI	CCGG	3 cut(s)	398, 412, 636
MspR9I	CCNGG	3 cut(s)	399, 637, 1121
Mva1269I	GAATGC	2 cut(s)	229, 294
MvaI	CCWGG	1 cut(s)	1121
MwoI	GCNNNNNNNGC	4 cut(s)	159, 168, 177, 484
NciI	CCSGG	2 cut(s)	399, 637
NcoI	CCATGG	1 cut(s)	1140
NdeII	GATC	1 cut(s)	805
NmeAIII	GCCGAG	2 cut(s)	318, 323
NmuCI	GTSAC	2 cut(s)	103, 254
NsbI	TGCGCA	1 cut(s)	66
NspI	RCATGY	4 cut(s)	338, 547, 840, 943
PaeI	GCATGC	1 cut(s)	338
PasI	CCCWGGG	1 cut(s)	1120
PciI	ACATGT	2 cut(s)	543, 939
PcsI	WCGNNNNNNNCGW	1 cut(s)	335
PctI	GAATGC	2 cut(s)	229, 294
PdmI	GAANNNNTTC	1 cut(s)	120
PfeI	GAWTC	4 cut(s)	509, 590, 665, 701
PkrI	GCNGC	2 cut(s)	47, 998
PleI	GAGTC	1 cut(s)	456
PpsI	GAGTC	1 cut(s)	456
PscI	ACATGT	2 cut(s)	543, 939
Psp6I	CCWGG	1 cut(s)	1119
PspGI	CCWGG	1 cut(s)	1119
PspPI	GGNCC	2 cut(s)	395, 714
PstI	CTGCAG	1 cut(s)	47
RsaI	GTAC	3 cut(s)	548, 828, 1052
RsaNI	GTAC	3 cut(s)	547, 827, 1051
SalI	GTCGAC	1 cut(s)	471
SaqAI	TTAA	5 cut(s)	167, 386, 563, 735, 797
SatI	GCNGC	2 cut(s)	46, 997
Sau3AI	GATC	1 cut(s)	805
Sau96I	GGNCC	2 cut(s)	395, 714
SchI	GAGTC	1 cut(s)	457
ScrFI	CCNGG	3 cut(s)	399, 637, 1121
SduI	GDGCHC	2 cut(s)	931, 1134
SetI	ASST	9 cut(s)	42, 81, 122, 149, 173, 380, 480, 1066, 1152
SfaNI	GCATC	2 cut(s)	258, 420
SfcI	CTRYAG	1 cut(s)	43
SinI	GGWCC	1 cut(s)	714
SmlI	CTYRAG	3 cut(s)	35, 166, 796
SmoI	CTYRAG	3 cut(s)	35, 166, 796
SphI	GCATGC	1 cut(s)	338
Sse9I	AATT	7 cut(s)	155, 316, 403, 497, 564, 705, 1071
SsiI	CCGC	8 cut(s)	178, 580, 729, 753, 834, 971, 997, 1095
SspMI	CTAG	1 cut(s)	1153
StyD4I	CCNGG	3 cut(s)	397, 635, 1119
StyI	CCWWGG	2 cut(s)	855, 1140
TaaI	ACNGT	3 cut(s)	103, 979, 1055
TaqI	TCGA	5 cut(s)	189, 286, 446, 472, 551
TasI	AATT	7 cut(s)	155, 316, 403, 497, 564, 705, 1071
TatI	WGTACW	1 cut(s)	546
TauI	GCSGC	1 cut(s)	999
TfiI	GAWTC	4 cut(s)	509, 590, 665, 701
Tru1I	TTAA	5 cut(s)	167, 386, 563, 735, 797
Tru9I	TTAA	5 cut(s)	167, 386, 563, 735, 797
TscAI	CASTG	2 cut(s)	1029, 1060
TseFI	GTSAC	2 cut(s)	103, 254
TseI	GCWGC	1 cut(s)	45
Tsp45I	GTSAC	2 cut(s)	103, 254
TspDTI	ATGAA	2 cut(s)	470, 866
TspGWI	ACGGA	2 cut(s)	226, 661
TspRI	CASTG	2 cut(s)	1029, 1060
Vha464I	CTTAAG	2 cut(s)	166, 796
VpaK11BI	GGWCC	1 cut(s)	714
XapI	RAATTY	3 cut(s)	316, 497, 1071
XceI	RCATGY	4 cut(s)	338, 547, 840, 943
XmiI	GTMKAC	1 cut(s)	472
XmnI	GAANNNNTTC	1 cut(s)	120
XspI	CTAG	1 cut(s)	1153

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