Basic Information

Type: gene

Biological Identity

Species

pyrus_communis

Chromosome

Chr4

Orthogroup ID

OG0006506

Physical Location & Seq

Genomic Coordinates Forward (+)

14228250 .. 14231305

Gene Structure 3056 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

pycom04g11340.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 843 bp

ATGGATGATAATTACTCAGGGGATTCTTCTAGTGGATTCTCTCAGAAAGATTCTAGTGCAGCAAGTTCTGTTTCAGCTTCAGTGATGAACAATGCAGCTGCTTCCGAGGGTGCCCGAAGTTCTGTTGAGATAAATGCACCAAAGAAGAAAAGGGCATCGGCAATAATGGCGGGAGGTCTGCGAGAGTTCAGTTCAAGAGTTTGCAACATATTGGAGAGCAAGGGAACAACAACCTTATCTAAGGTTGCAGATGAGATAATTTCTGAGTTTTCTGGAAATGACTGTGAAACAGCAAAGTGTTCGAAAGAGTTTGAAAATGTACGACGTCGAGTATATACTGTGTTCCATGTTCTTGAGGCACTGGATATCGTCACAACAGCTAAAAAGGAAATCAAGTGGAAGGGGCGTCCTCCAGACAGAAGTATAATGAATCTGGAAGGGATGAATGAAGAGTGTGTCAAATTGGTGAATACGATTGGAAGGAAGACGGCACACTTGAAAGAATTAGAGGAGCAAATTGCAGATCTCAAAGATTTAATGTTGCACAATAAGCAGTTGCTCAAGAATGGGAACACCCTTCCTGAAGGATTTTCGTTGCCATTTATACTGGTTCAGACAAGCTCTCATGCTAGTGTTGAGGTTGAGATTTCCGAAGACATGCGCATGGTGTACTTCGACTTCAATAGTACACCCTTCTCCTTGCACGATGATGCAACCATTGTGAAGTTATTGCAGCGTCACCAGCGGCCAGAAAGAACAAATGCTTCTCAAAGTGAATTCGTGGCTGGGTGTGCAGTGCAAATGCATATAAGCGTTGGTGCAACTGAACTTGTGTTGGTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000082 GO:0000278 GO:0000981 GO:0003674 GO:0003700 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006355 GO:0006357 GO:0006725 GO:0006807 GO:0007049 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009987 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0022402 GO:0031323 GO:0031326 GO:0034641 GO:0034645 GO:0042023 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044424 GO:0044464 GO:0044770 GO:0044772 GO:0044786 GO:0044843 GO:0046483 GO:0046982 GO:0046983 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0140110 GO:1901360 GO:1901576 GO:1903047 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04110 ko04350 map04110 map04350

Pfam Domains

Protein Families

DP E2F_TDP

Protein Analysis

281

Amino Acids

30.8

Weight (kDa)

5.86

Isoelectric Point (pI)

49.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_E2F_TDP	PF02319	59 - 135	1.1e-11	E2F/DP family winged-helix DNA-binding domain
DP	PF08781	146 - 259	8.9e-27	Transcription factor DP

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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Publication-ready

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Orthologous Genes (Group: OG0006506)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G02470 AT5G02470 AT5G02470
fragaria_vesca	FvH4_6g14010 FvH4_6g14010 FvH4_6g14010 FvH4_6g14010 FvH4_6g14010 FvH4_6g14010 FvH4_6g14010
malus_domestica	MD04G1126400.v1.1
prunus_persica	Prupe.6G253200_v2.0.a1 Prupe.6G253200_v2.0.a1
pyrus_communis	pycom04g11340
rosa_chinensis	RchiOBHm_Chr3g0466841
rosa_laevigata	RLG00000024547
rosa_multiflora	Rmu_sc0026100.1_g000001
rosa_roxburghii	Rroxscaffold_6G00414090
rosa_rugosa	Rorug03G0083900 Rorug03G0084000 Rorug03G0084100
rosa_samantha	Rh3AG131700 Rh3BG152800 Rh3CG153000 Rh3DG153900
rosa_wichuraiana	Rw3G012450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	328
Acc16I	TGCGCA	1 cut(s)	662
AccB1I	GGYRCC	1 cut(s)	110
AciI	CCGC	2 cut(s)	170, 745
AcoI	YGGCCR	1 cut(s)	746
AcsI	RAATTY	1 cut(s)	776
AcuI	CTGAAG	2 cut(s)	63, 603
AcyI	GRCGYC	2 cut(s)	325, 406
AfaI	GTAC	3 cut(s)	321, 671, 688
AgsI	TTSAA	4 cut(s)	195, 314, 499, 682
AluBI	AGCT	4 cut(s)	77, 98, 380, 621
AluI	AGCT	4 cut(s)	77, 98, 380, 621
AoxI	GGCC	1 cut(s)	746
ApeKI	GCWGC	4 cut(s)	59, 95, 98, 733
ApoI	RAATTY	1 cut(s)	776
AspLEI	GCGC	1 cut(s)	663
AsuHPI	GGTGA	2 cut(s)	478, 731
AsuII	TTCGAA	1 cut(s)	302
BaeGI	GKGCMC	1 cut(s)	115
BanI	GGYRCC	1 cut(s)	110
BarI	GAAGNNNNNNTAC	2 cut(s)	662, 694
BbsI	GAAGAC	2 cut(s)	491, 660
BbvI	GCAGC	4 cut(s)	71, 85, 107, 745
BceAI	ACGGC	1 cut(s)	504
BcgI	CGANNNNNNTGC	2 cut(s)	282, 316
BfaI	CTAG	3 cut(s)	30, 54, 630
BglII	AGATCT	1 cut(s)	523
BisI	GCNGC	5 cut(s)	60, 96, 99, 734, 746
BlsI	GCNGC	5 cut(s)	61, 97, 100, 735, 747
BmiI	GGNNCC	1 cut(s)	112
BmsI	GCATC	2 cut(s)	164, 700
BpiI	GAAGAC	2 cut(s)	491, 660
BpmI	CTGGAG	1 cut(s)	396
Bpu14I	TTCGAA	1 cut(s)	302
BpuEI	CTTGAG	2 cut(s)	374, 545
BsaHI	GRCGYC	2 cut(s)	325, 406
BsaJI	CCNNGG	1 cut(s)	105
Bse1I	ACTGG	2 cut(s)	366, 612
BseDI	CCNNGG	1 cut(s)	105
BseGI	GGATG	2 cut(s)	10, 447
BseMII	CTCAG	3 cut(s)	30, 56, 255
BseNI	ACTGG	2 cut(s)	366, 612
BseRI	GAGGAG	1 cut(s)	524
BseSI	GKGCMC	1 cut(s)	115
BseXI	GCAGC	4 cut(s)	71, 85, 107, 745
BseYI	CCCAGC	1 cut(s)	785
BsgI	GTGCAG	2 cut(s)	78, 813
BshFI	GGCC	1 cut(s)	748
BshNI	GGYRCC	1 cut(s)	110
BsnI	GGCC	1 cut(s)	748
Bsp119I	TTCGAA	1 cut(s)	302
Bsp1286I	GDGCHC	1 cut(s)	115
Bsp143I	GATC	1 cut(s)	523
BspACI	CCGC	2 cut(s)	170, 745
BspANI	GGCC	1 cut(s)	748
BspCNI	CTCAG	3 cut(s)	29, 55, 256
BspLI	GGNNCC	1 cut(s)	112
BspT104I	TTCGAA	1 cut(s)	302
BspT107I	GGYRCC	1 cut(s)	110
BsrI	ACTGG	2 cut(s)	366, 612
BssECI	CCNNGG	1 cut(s)	105
BssMI	GATC	1 cut(s)	523
BssNI	GRCGYC	2 cut(s)	325, 406
Bst4CI	ACNGT	2 cut(s)	284, 340
Bst6I	CTCTTC	1 cut(s)	444
BstACI	GRCGYC	2 cut(s)	325, 406
BstBI	TTCGAA	1 cut(s)	302
BstDEI	CTNAG	4 cut(s)	16, 42, 240, 264
BstF5I	GGATG	2 cut(s)	10, 447
BstHHI	GCGC	1 cut(s)	663
BstKTI	GATC	1 cut(s)	526
BstMBI	GATC	1 cut(s)	523
BstMWI	GCNNNNNNNGC	4 cut(s)	167, 550, 742, 791
BstNSI	RCATGY	1 cut(s)	661
BstSLI	GKGCMC	1 cut(s)	115
BstV1I	GCAGC	4 cut(s)	71, 85, 107, 745
BstV2I	GAAGAC	2 cut(s)	491, 660
BstX2I	RGATCY	1 cut(s)	523
BstYI	RGATCY	1 cut(s)	523
BsuRI	GGCC	1 cut(s)	748
BtsCI	GGATG	2 cut(s)	10, 447
BtsI	GCAGTG	1 cut(s)	801
BtsIMutI	CAGTG	3 cut(s)	87, 359, 801
CfoI	GCGC	1 cut(s)	663
CseI	GACGC	2 cut(s)	395, 725
Csp6I	GTAC	3 cut(s)	320, 670, 687
CviAII	CATG	4 cut(s)	347, 626, 658, 664
CviJI	RGCY	6 cut(s)	77, 98, 380, 621, 748, 785
CviKI_1	RGCY	6 cut(s)	77, 98, 380, 621, 748, 785
CviQI	GTAC	3 cut(s)	320, 670, 687
DdeI	CTNAG	4 cut(s)	16, 42, 240, 264
DpnI	GATC	1 cut(s)	525
DpnII	GATC	1 cut(s)	523
EaeI	YGGCCR	1 cut(s)	746
Eam1104I	CTCTTC	1 cut(s)	444
EarI	CTCTTC	1 cut(s)	444
Eco32I	GATATC	1 cut(s)	367
Eco57I	CTGAAG	2 cut(s)	63, 603
EcoRI	GAATTC	1 cut(s)	776
EcoRV	GATATC	1 cut(s)	367
EcoT22I	ATGCAT	1 cut(s)	807
FaeI	CATG	4 cut(s)	350, 629, 661, 667
FatI	CATG	4 cut(s)	346, 625, 657, 663
FauI	CCCGC	1 cut(s)	163
Fnu4HI	GCNGC	5 cut(s)	60, 96, 99, 734, 746
FokI	GGATG	2 cut(s)	17, 454
Fsp4HI	GCNGC	5 cut(s)	60, 96, 99, 734, 746
FspAI	RTGCGCAY	1 cut(s)	662
FspBI	CTAG	3 cut(s)	30, 54, 630
FspI	TGCGCA	1 cut(s)	662
GlaI	GCGC	1 cut(s)	662
GluI	GCNGC	5 cut(s)	60, 96, 99, 734, 746
GsaI	CCCAGC	1 cut(s)	789
GsuI	CTGGAG	1 cut(s)	396
HaeIII	GGCC	1 cut(s)	748
HgaI	GACGC	2 cut(s)	395, 725
HhaI	GCGC	1 cut(s)	663
Hin1I	GRCGYC	2 cut(s)	325, 406
Hin1II	CATG	4 cut(s)	350, 629, 661, 667
Hin6I	GCGC	1 cut(s)	661
HinP1I	GCGC	1 cut(s)	661
HinfI	GANTC	4 cut(s)	23, 36, 50, 430
HphI	GGTGA	2 cut(s)	478, 731
Hpy166II	GTNNAC	2 cut(s)	670, 689
Hpy188I	TCNGA	5 cut(s)	45, 106, 265, 615, 652
Hpy188III	TCNNGA	7 cut(s)	195, 273, 353, 413, 434, 562, 581
Hpy8I	GTNNAC	2 cut(s)	670, 689
Hpy99I	CGWCG	2 cut(s)	327, 330
HpyAV	CCTTC	6 cut(s)	394, 431, 474, 578, 587, 703
HpyCH4III	ACNGT	2 cut(s)	284, 340
HpyCH4IV	ACGT	1 cut(s)	325
HpyF10VI	GCNNNNNNNGC	4 cut(s)	167, 550, 742, 791
HpyF3I	CTNAG	4 cut(s)	16, 42, 240, 264
HpySE526I	ACGT	1 cut(s)	325
Hsp92I	GRCGYC	2 cut(s)	325, 406
Hsp92II	CATG	4 cut(s)	350, 629, 661, 667
HspAI	GCGC	1 cut(s)	661
Kzo9I	GATC	1 cut(s)	523
LmnI	GCTCC	1 cut(s)	511
Lsp1109I	GCAGC	4 cut(s)	71, 85, 107, 745
LweI	GCATC	2 cut(s)	164, 700
MaeI	CTAG	3 cut(s)	30, 54, 630
MaeII	ACGT	1 cut(s)	325
MaeIII	GTNAC	2 cut(s)	370, 737
MalI	GATC	1 cut(s)	525
MboI	GATC	1 cut(s)	523
MboII	GAAGA	5 cut(s)	18, 157, 461, 496, 665
MflI	RGATCY	1 cut(s)	523
MhlI	GDGCHC	1 cut(s)	115
MluCI	AATT	6 cut(s)	10, 258, 461, 503, 516, 776
MnlI	CCTC	6 cut(s)	100, 167, 349, 420, 502, 631
Mph1103I	ATGCAT	1 cut(s)	807
MseI	TTAA	1 cut(s)	536
MslI	CAYNNNNRTG	3 cut(s)	630, 662, 708
MspA1I	CMGCKG	2 cut(s)	98, 745
MwoI	GCNNNNNNNGC	4 cut(s)	167, 550, 742, 791
NdeII	GATC	1 cut(s)	523
NlaIII	CATG	4 cut(s)	350, 629, 661, 667
NlaIV	GGNNCC	1 cut(s)	112
NmuCI	GTSAC	2 cut(s)	370, 737
NsbI	TGCGCA	1 cut(s)	662
NsiI	ATGCAT	1 cut(s)	807
NspI	RCATGY	1 cut(s)	661
NspV	TTCGAA	1 cut(s)	302
PfeI	GAWTC	4 cut(s)	23, 36, 50, 430
PkrI	GCNGC	5 cut(s)	61, 97, 100, 735, 747
PspFI	CCCAGC	1 cut(s)	785
PspN4I	GGNNCC	1 cut(s)	112
PsuI	RGATCY	1 cut(s)	523
PvuII	CAGCTG	1 cut(s)	98
RsaI	GTAC	3 cut(s)	321, 671, 688
RsaNI	GTAC	3 cut(s)	320, 670, 687
RseI	CAYNNNNRTG	3 cut(s)	630, 662, 708
SaqAI	TTAA	1 cut(s)	536
SatI	GCNGC	5 cut(s)	60, 96, 99, 734, 746
Sau3AI	GATC	1 cut(s)	523
SduI	GDGCHC	1 cut(s)	115
SetI	ASST	9 cut(s)	79, 100, 178, 236, 246, 328, 382, 623, 642
SfaNI	GCATC	2 cut(s)	164, 700
SfuI	TTCGAA	1 cut(s)	302
SmiMI	CAYNNNNRTG	3 cut(s)	630, 662, 708
SmlI	CTYRAG	2 cut(s)	353, 560
SmoI	CTYRAG	2 cut(s)	353, 560
Sse9I	AATT	6 cut(s)	10, 258, 461, 503, 516, 776
SsiI	CCGC	2 cut(s)	170, 745
SspMI	CTAG	3 cut(s)	30, 54, 630
TaaI	ACNGT	2 cut(s)	284, 340
TaiI	ACGT	1 cut(s)	328
TaqI	TCGA	3 cut(s)	302, 328, 675
TasI	AATT	6 cut(s)	10, 258, 461, 503, 516, 776
TatI	WGTACW	2 cut(s)	669, 686
TauI	GCSGC	1 cut(s)	748
TfiI	GAWTC	4 cut(s)	23, 36, 50, 430
Tru1I	TTAA	1 cut(s)	536
Tru9I	TTAA	1 cut(s)	536
TscAI	CASTG	3 cut(s)	87, 366, 801
TseFI	GTSAC	2 cut(s)	370, 737
TseI	GCWGC	4 cut(s)	59, 95, 98, 733
Tsp45I	GTSAC	2 cut(s)	370, 737
TspDTI	ATGAA	4 cut(s)	101, 443, 458, 462
TspRI	CASTG	3 cut(s)	87, 366, 801
XapI	RAATTY	1 cut(s)	776
XceI	RCATGY	1 cut(s)	661
XspI	CTAG	3 cut(s)	30, 54, 630
ZraI	GACGTC	1 cut(s)	326
Zsp2I	ATGCAT	1 cut(s)	807

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