Basic Information

Type: gene

Biological Identity

Species

pyrus_communis

Chromosome

Chr8

Orthogroup ID

OG0004066

Physical Location & Seq

Genomic Coordinates Forward (+)

435978 .. 437053

Gene Structure 1076 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

N/A

Sequence Viewer

CDS Protein Promoter (2k)

Length: 969 bp

ATGGTTGAATCTGAAATTAGTGAAGAAATTAAGGTTCTTCCCGGAAATGCTGGGGATGATAATTCGATTTCTGAGCCCAGAAATGAAGTTAGCCTTAGCATTAATGAAGAAACTAAGGTTCTTACGGAGAATGCTGGGGTTGATACTTCGAATTCTGAACTCAAAACTGAAATTAGCATCAGTATTAATAACAATGAAGTTTCTGAAATTGAGGTTGAGAATAATCGAGCGGTCCCCAATGAGGCAGACGCTGCTGATTTGAATTCAGAGTCAATGAATGATACGAATGTTAGTCTTGGTGAAGAGAAGGCTAATGGAGACGAGAAGACAGAGGAGGGAAGTGGAAGGGGAAGTGGATTTTGTTATGGTGAGAAGGAGAGGGAAAGGTTTAACAAAATTTTGAATAGTTATGAGGGGACTCATAACTTCCACAACTTCACCACCAGAACTAAAGCTGTAGACCCTGCTGCTCAGCGCTACATCATTTCGTTCAATGCGAGCACCACGGTTACAGTTGAGGGTATGGAATTCGTTAAGTGTGAAGTTGTGGGGCAGAGCTTCATGCTTCATCAGATTAGGAAGATGATCGGGCTTGCGGTGGCAATCTTCAGGGGATGTGCTTCTGAGTCATTGCTAGAAAGGGCATTGCAAAAGGATGTTAACATCAATGTGCCGACGGCTCCTGAGGTTGGTTTGTACTTGGATGAGTGCTTCTTTGCGTCGTACAACCAGAAATGGGGAGATAGTCATGAAGAACTGTCAATGAAAGACTATGAACAAGAGGCAGAAGACTTCAAGATGAAGCATATATACGCTCACATTGCATCCACTGAGCATAAAGAAGGTGTTGTGGGTCTCTGGTTGCACTCCCTCAACCACCGTAACTATCCGGATTTAGGTCCTGCCGAGAACCATGGAAACACCACCAACGGAATAGGTGCTGATGCGGGTAATGTCGCCCCCGAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000049 GO:0000959 GO:0000963 GO:0001522 GO:0002153 GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0003824 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005739 GO:0005759 GO:0006139 GO:0006396 GO:0006399 GO:0006400 GO:0006725 GO:0006807 GO:0008033 GO:0008150 GO:0008152 GO:0009451 GO:0009982 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0016556 GO:0016853 GO:0016866 GO:0031119 GO:0031974 GO:0034470 GO:0034641 GO:0034660 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044429 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0070525 GO:0070900 GO:0070902 GO:0071704 GO:0090304 GO:0090646 GO:0097159 GO:0140053 GO:1900864 GO:1901360 GO:1901363 GO:1990481

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PseudoU_synth_1

Protein Analysis

323

Amino Acids

35.51

Weight (kDa)

4.63

Isoelectric Point (pI)

37.55

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PseudoU_synth_1	PF01416	135 - 239	3.6e-14	tRNA pseudouridine synthase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004066)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G20370 AT1G76120 AT1G76120
fragaria_vesca	FvH4_4g09040 FvH4_4g09040 FvH4_4g09040 FvH4_4g09040 FvH4_4g09040 FvH4_4g09040 FvH4_4g09040 FvH4_4g09040 FvH4_4g09040 FvH4_4g09040 FvH4_4g09040 FvH4_5g07491
malus_domestica	MD15G1005300.v1.1 MD15G1005400.v1.1
prunus_persica	Prupe.1G357900_v2.0.a1
pyrus_communis	pycom08g00460 pycom15g00380 pycom15g00390
rosa_chinensis	RchiOBHm_Chr6g0303831
rosa_laevigata	RLG00000011040
rosa_multiflora	Rmu_co8307379.1_g000001 Rmu_sc0012878.1_g000001 Rmu_sc0022895.1_g000001
rosa_roxburghii	Rroxscaffold_7G00164370
rosa_rugosa	Rorug06G0325200
rosa_samantha	Rh6AG439500 Rh6BG463500 Rh6CG451800 Rh6DG438700
rosa_wichuraiana	Rw6G038050

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	230
AccI	GTMKAC	1 cut(s)	459
AccIII	TCCGGA	1 cut(s)	889
AciI	CCGC	3 cut(s)	230, 596, 947
AcsI	RAATTY	4 cut(s)	151, 262, 396, 527
AcuI	CTGAAG	1 cut(s)	592
AfaI	GTAC	2 cut(s)	698, 725
AfeI	AGCGCT	1 cut(s)	476
AfiI	CCNNNNNNNGG	4 cut(s)	241, 689, 736, 896
AgsI	TTSAA	5 cut(s)	8, 262, 403, 493, 796
AluBI	AGCT	2 cut(s)	455, 558
AluI	AGCT	2 cut(s)	455, 558
Alw21I	GWGCWC	1 cut(s)	503
Alw26I	GTCTC	2 cut(s)	312, 860
AlwNI	CAGNNNCTG	1 cut(s)	251
Ama87I	CYCGRG	1 cut(s)	962
Aor13HI	TCCGGA	1 cut(s)	889
Aor51HI	AGCGCT	1 cut(s)	476
ApeKI	GCWGC	2 cut(s)	251, 467
ApoI	RAATTY	4 cut(s)	151, 262, 396, 527
AseI	ATTAAT	2 cut(s)	102, 186
AspLEI	GCGC	1 cut(s)	477
AspS9I	GGNCC	2 cut(s)	232, 899
AsuC2I	CCSGG	1 cut(s)	42
AsuHPI	GGTGA	3 cut(s)	311, 380, 430
AsuII	TTCGAA	1 cut(s)	149
AvaI	CYCGRG	1 cut(s)	962
AvaII	GGWCC	2 cut(s)	232, 899
AxyI	CCTNAGG	1 cut(s)	684
BaeI	ACNNNNGTAYC	2 cut(s)	273, 306
BanII	GRGCYC	1 cut(s)	78
BarI	GAAGNNNNNNTAC	2 cut(s)	794, 826
BbsI	GAAGAC	2 cut(s)	332, 795
Bbv12I	GWGCWC	1 cut(s)	503
BbvI	GCAGC	2 cut(s)	238, 454
BceAI	ACGGC	1 cut(s)	693
BcnI	CCSGG	1 cut(s)	42
BcoDI	GTCTC	2 cut(s)	312, 860
BfaI	CTAG	1 cut(s)	635
BfmI	CTRYAG	1 cut(s)	456
BfoI	RGCGCY	1 cut(s)	478
BisI	GCNGC	2 cut(s)	252, 468
BlpI	GCTNAGC	1 cut(s)	471
BlsI	GCNGC	2 cut(s)	253, 469
Bme1390I	CCNGG	1 cut(s)	42
Bme18I	GGWCC	2 cut(s)	232, 899
BmeT110I	CYCGRG	1 cut(s)	962
BmgT120I	GGNCC	2 cut(s)	232, 899
BmiI	GGNNCC	2 cut(s)	234, 681
BmrFI	CCNGG	1 cut(s)	42
BmsI	GCATC	3 cut(s)	186, 833, 934
BpiI	GAAGAC	2 cut(s)	332, 795
Bpu10I	CCTNAGC	1 cut(s)	95
Bpu1102I	GCTNAGC	1 cut(s)	471
Bpu14I	TTCGAA	1 cut(s)	149
BpuMI	CCSGG	1 cut(s)	42
BsaI	GGTCTC	1 cut(s)	860
BsaJI	CCNNGG	2 cut(s)	504, 913
BsaWI	WCCGGW	1 cut(s)	889
Bsc4I	CCNNNNNNNGG	4 cut(s)	241, 689, 736, 896
Bse21I	CCTNAGG	1 cut(s)	684
Bse3DI	GCAATG	3 cut(s)	629, 644, 819
BseAI	TCCGGA	1 cut(s)	889
BseDI	CCNNGG	2 cut(s)	504, 913
BseGI	GGATG	5 cut(s)	61, 620, 661, 709, 824
BseLI	CCNNNNNNNGG	4 cut(s)	241, 689, 736, 896
BseMI	GCAATG	3 cut(s)	629, 644, 819
BseMII	CTCAG	5 cut(s)	63, 485, 615, 675, 822
BseRI	GAGGAG	1 cut(s)	347
BseXI	GCAGC	2 cut(s)	238, 454
BseYI	CCCAGC	2 cut(s)	50, 134
BsiHKAI	GWGCWC	1 cut(s)	503
BsiHKCI	CYCGRG	1 cut(s)	962
BsiSI	CCGG	2 cut(s)	42, 890
BslFI	GGGAC	2 cut(s)	218, 430
BslI	CCNNNNNNNGG	4 cut(s)	241, 689, 736, 896
BsmAI	GTCTC	2 cut(s)	312, 860
BsmBI	CGTCTC	1 cut(s)	312
BsmFI	GGGAC	2 cut(s)	218, 430
BsmI	GAATGC	1 cut(s)	136
Bso31I	GGTCTC	1 cut(s)	860
BsoBI	CYCGRG	1 cut(s)	962
Bsp119I	TTCGAA	1 cut(s)	149
Bsp1286I	GDGCHC	2 cut(s)	78, 503
Bsp13I	TCCGGA	1 cut(s)	889
Bsp143I	GATC	1 cut(s)	585
Bsp1720I	GCTNAGC	1 cut(s)	471
Bsp19I	CCATGG	1 cut(s)	913
BspACI	CCGC	3 cut(s)	230, 596, 947
BspCNI	CTCAG	5 cut(s)	64, 484, 616, 676, 823
BspEI	TCCGGA	1 cut(s)	889
BspHI	TCATGA	1 cut(s)	748
BspLI	GGNNCC	2 cut(s)	234, 681
BspT104I	TTCGAA	1 cut(s)	149
BspTNI	GGTCTC	1 cut(s)	860
BsrBI	CCGCTC	1 cut(s)	230
BsrDI	GCAATG	3 cut(s)	629, 644, 819
BssECI	CCNNGG	2 cut(s)	504, 913
BssMI	GATC	1 cut(s)	585
BssT1I	CCWWGG	1 cut(s)	913
Bst4CI	ACNGT	4 cut(s)	508, 514, 759, 881
Bst6I	CTCTTC	1 cut(s)	297
BstAPI	GCANNNNNTGC	1 cut(s)	251
BstBI	TTCGAA	1 cut(s)	149
BstC8I	GCNNGC	2 cut(s)	499, 594
BstDEI	CTNAG	7 cut(s)	72, 95, 114, 471, 624, 684, 831
BstDSI	CCRYGG	2 cut(s)	504, 913
BstF5I	GGATG	5 cut(s)	61, 620, 661, 709, 824
BstH2I	RGCGCY	1 cut(s)	478
BstHHI	GCGC	1 cut(s)	477
BstKTI	GATC	1 cut(s)	588
BstMAI	GTCTC	2 cut(s)	312, 860
BstMBI	GATC	1 cut(s)	585
BstMWI	GCNNNNNNNGC	2 cut(s)	251, 821
BstSCI	CCNGG	1 cut(s)	40
BstSFI	CTRYAG	1 cut(s)	456
BstV1I	GCAGC	2 cut(s)	238, 454
BstV2I	GAAGAC	2 cut(s)	332, 795
Bsu36I	CCTNAGG	1 cut(s)	684
BtgI	CCRYGG	2 cut(s)	504, 913
BtsCI	GGATG	5 cut(s)	61, 620, 661, 709, 824
BtsIMutI	CAGTG	1 cut(s)	828
Cac8I	GCNNGC	2 cut(s)	499, 594
CaiI	CAGNNNCTG	1 cut(s)	251
CciI	TCATGA	1 cut(s)	748
CfoI	GCGC	1 cut(s)	477
Cfr13I	GGNCC	2 cut(s)	232, 899
CseI	GACGC	2 cut(s)	257, 708
Csp6I	GTAC	2 cut(s)	697, 724
CviAII	CATG	3 cut(s)	562, 749, 914
CviJI	RGCY	7 cut(s)	76, 93, 311, 455, 558, 592, 680
CviKI_1	RGCY	7 cut(s)	76, 93, 311, 455, 558, 592, 680
CviQI	GTAC	2 cut(s)	697, 724
DdeI	CTNAG	7 cut(s)	72, 95, 114, 471, 624, 684, 831
DpnI	GATC	1 cut(s)	587
DpnII	GATC	1 cut(s)	585
Eam1104I	CTCTTC	1 cut(s)	297
EarI	CTCTTC	1 cut(s)	297
Eco130I	CCWWGG	1 cut(s)	913
Eco24I	GRGCYC	1 cut(s)	78
Eco31I	GGTCTC	1 cut(s)	860
Eco47I	GGWCC	2 cut(s)	232, 899
Eco47III	AGCGCT	1 cut(s)	476
Eco57I	CTGAAG	1 cut(s)	592
Eco81I	CCTNAGG	1 cut(s)	684
Eco88I	CYCGRG	1 cut(s)	962
EcoO109I	RGGNCCY	1 cut(s)	899
EcoRI	GAATTC	3 cut(s)	151, 262, 527
EcoT14I	CCWWGG	1 cut(s)	913
EcoT38I	GRGCYC	1 cut(s)	78
ErhI	CCWWGG	1 cut(s)	913
Esp3I	CGTCTC	1 cut(s)	312
FaeI	CATG	3 cut(s)	565, 752, 917
FalI	AAGNNNNNCTT	2 cut(s)	78, 110
FaqI	GGGAC	2 cut(s)	218, 430
FatI	CATG	3 cut(s)	561, 748, 913
FauI	CCCGC	1 cut(s)	940
FblI	GTMKAC	1 cut(s)	459
Fnu4HI	GCNGC	2 cut(s)	252, 468
FokI	GGATG	5 cut(s)	68, 627, 668, 716, 811
FriOI	GRGCYC	1 cut(s)	78
Fsp4HI	GCNGC	2 cut(s)	252, 468
FspBI	CTAG	1 cut(s)	635
GlaI	GCGC	1 cut(s)	476
GluI	GCNGC	2 cut(s)	252, 468
GsaI	CCCAGC	2 cut(s)	54, 138
HaeII	RGCGCY	1 cut(s)	478
HapII	CCGG	2 cut(s)	42, 890
HgaI	GACGC	2 cut(s)	257, 708
HhaI	GCGC	1 cut(s)	477
Hin1II	CATG	3 cut(s)	565, 752, 917
Hin6I	GCGC	1 cut(s)	475
HinP1I	GCGC	1 cut(s)	475
HincII	GTYRAC	1 cut(s)	661
HindII	GTYRAC	1 cut(s)	661
HinfI	GANTC	4 cut(s)	8, 269, 418, 626
HpaI	GTTAAC	1 cut(s)	661
HpaII	CCGG	2 cut(s)	42, 890
HphI	GGTGA	3 cut(s)	311, 380, 430
Hpy166II	GTNNAC	2 cut(s)	460, 661
Hpy188I	TCNGA	7 cut(s)	13, 73, 157, 205, 268, 573, 625
Hpy188III	TCNNGA	4 cut(s)	683, 749, 796, 890
Hpy8I	GTNNAC	2 cut(s)	460, 661
Hpy99I	CGWCG	2 cut(s)	679, 724
HpyAV	CCTTC	4 cut(s)	301, 339, 367, 836
HpyCH4III	ACNGT	4 cut(s)	508, 514, 759, 881
HpyCH4V	TGCA	3 cut(s)	649, 824, 865
HpyF10VI	GCNNNNNNNGC	2 cut(s)	251, 821
HpyF3I	CTNAG	7 cut(s)	72, 95, 114, 471, 624, 684, 831
Hsp92II	CATG	3 cut(s)	565, 752, 917
HspAI	GCGC	1 cut(s)	475
Kpn2I	TCCGGA	1 cut(s)	889
KspAI	GTTAAC	1 cut(s)	661
Kzo9I	GATC	1 cut(s)	585
LmnI	GCTCC	1 cut(s)	685
Lsp1109I	GCAGC	2 cut(s)	238, 454
LweI	GCATC	3 cut(s)	186, 833, 934
MaeI	CTAG	1 cut(s)	635
MaeIII	GTNAC	2 cut(s)	508, 881
MalI	GATC	1 cut(s)	587
MbiI	CCGCTC	1 cut(s)	230
MboI	GATC	1 cut(s)	585
MboII	GAAGA	9 cut(s)	29, 35, 119, 314, 337, 592, 598, 764, 800
MhlI	GDGCHC	2 cut(s)	78, 503
MluCI	AATT	9 cut(s)	15, 27, 61, 151, 171, 207, 262, 396, 527
MlyI	GAGTC	3 cut(s)	278, 412, 635
MroI	TCCGGA	1 cut(s)	889
MseI	TTAA	6 cut(s)	30, 102, 186, 390, 534, 660
MslI	CAYNNNNRTG	1 cut(s)	668
MspI	CCGG	2 cut(s)	42, 890
MspR9I	CCNGG	1 cut(s)	42
Mva1269I	GAATGC	1 cut(s)	136
MwoI	GCNNNNNNNGC	2 cut(s)	251, 821
NciI	CCSGG	1 cut(s)	42
NcoI	CCATGG	1 cut(s)	913
NdeII	GATC	1 cut(s)	585
NlaIII	CATG	3 cut(s)	565, 752, 917
NlaIV	GGNNCC	2 cut(s)	234, 681
NmeAIII	GCCGAG	1 cut(s)	931
NspV	TTCGAA	1 cut(s)	149
PagI	TCATGA	1 cut(s)	748
PcsI	WCGNNNNNNNCGW	1 cut(s)	494
PctI	GAATGC	1 cut(s)	136
PfeI	GAWTC	1 cut(s)	8
PfoI	TCCNGGA	1 cut(s)	40
PkrI	GCNGC	2 cut(s)	253, 469
PleI	GAGTC	3 cut(s)	277, 412, 634
PpsI	GAGTC	3 cut(s)	277, 412, 634
PpuMI	RGGWCCY	1 cut(s)	899
PshBI	ATTAAT	2 cut(s)	102, 186
Psp5II	RGGWCCY	1 cut(s)	899
PspFI	CCCAGC	2 cut(s)	50, 134
PspN4I	GGNNCC	2 cut(s)	234, 681
PspPI	GGNCC	2 cut(s)	232, 899
PspPPI	RGGWCCY	1 cut(s)	899
PstNI	CAGNNNCTG	1 cut(s)	251
RsaI	GTAC	2 cut(s)	698, 725
RsaNI	GTAC	2 cut(s)	697, 724
RseI	CAYNNNNRTG	1 cut(s)	668
SaqAI	TTAA	6 cut(s)	30, 102, 186, 390, 534, 660
SatI	GCNGC	2 cut(s)	252, 468
Sau3AI	GATC	1 cut(s)	585
Sau96I	GGNCC	2 cut(s)	232, 899
SchI	GAGTC	3 cut(s)	278, 412, 635
ScrFI	CCNGG	1 cut(s)	42
SduI	GDGCHC	2 cut(s)	78, 503
SfaNI	GCATC	3 cut(s)	186, 833, 934
SfcI	CTRYAG	1 cut(s)	456
SfuI	TTCGAA	1 cut(s)	149
SinI	GGWCC	2 cut(s)	232, 899
SmiMI	CAYNNNNRTG	1 cut(s)	668
Sse9I	AATT	9 cut(s)	15, 27, 61, 151, 171, 207, 262, 396, 527
SsiI	CCGC	3 cut(s)	230, 596, 947
SspMI	CTAG	1 cut(s)	635
StyD4I	CCNGG	1 cut(s)	40
StyI	CCWWGG	1 cut(s)	913
TaaI	ACNGT	4 cut(s)	508, 514, 759, 881
TaqI	TCGA	3 cut(s)	65, 149, 226
TasI	AATT	9 cut(s)	15, 27, 61, 151, 171, 207, 262, 396, 527
TatI	WGTACW	1 cut(s)	696
TfiI	GAWTC	1 cut(s)	8
Tru1I	TTAA	6 cut(s)	30, 102, 186, 390, 534, 660
Tru9I	TTAA	6 cut(s)	30, 102, 186, 390, 534, 660
TscAI	CASTG	1 cut(s)	835
TseI	GCWGC	2 cut(s)	251, 467
TspGWI	ACGGA	2 cut(s)	140, 945
TspRI	CASTG	1 cut(s)	835
VpaK11BI	GGWCC	2 cut(s)	232, 899
VspI	ATTAAT	2 cut(s)	102, 186
XapI	RAATTY	4 cut(s)	151, 262, 396, 527
XmiI	GTMKAC	1 cut(s)	459
XspI	CTAG	1 cut(s)	635

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