Basic Information

Type: gene

Biological Identity

Species

pyrus_communis

Chromosome

Chr12

Orthogroup ID

OG0006222

Physical Location & Seq

Genomic Coordinates Forward (+)

22976442 .. 22978413

Gene Structure 1972 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

N/A

Sequence Viewer

CDS Protein Promoter (2k)

Length: 831 bp

ATGATGTATGTGCATAGTTACCAAAGCTATTTGTGGAACCATGCAGCGAGTATGAGAGTGAAGAAATATGGAACTGACCAAGTTGTGTTGGGAGACTTGGTATATTGTAAAGGAAATGAGACAGAAAAGGTGACAGAAGTTGTTAGTTCTGAGTGTGTAGATGAAAATGGTGATGATATGCTTGATCCTAATGATTTAGGCGATATAGCTGAAACAAATCTTCCTGAGGAAAAGCTTAGTCTTGTGAAGGCTGTAACTGCAGAAGATATCCAGAGTGGAAATTATACAATTGAGGATGTTGTCCTTCCTATGCCCGGTTCAAGAGTCATTTTTCCAGAAAATGATATTGCTGATGTCTTTCATGATTTGGCAAAGAAGGATGAAATCAGCTTGACAGAAAGCGTACATAATGTCAAGGAATTCTCAATAACAAGCGTGACTGGAAATTATCGACGCATCTTCCAAAAACCAGTGGACTTTGAATGGGAGATACTAAAATACAGTGATGGTAATATACCTCTGGTGGACACCGACTTGGACAAAATTGCCAAAACCAAACCTGCTAGCGTTGACAAAGAGGATCCAGCCAGTCTAAATGGAGATGGAAGTTTGCATGACAACGCAAAACAGACAGAGTGCGGTGACAATGATATCGGGGACAAGGGAGAAAAGCTGCCGGAAGTTGGATCCCTCAGTGACACTAATCCTCAGGAAACTCAAATGGCTCTCAAGTTGAGCTTTACTCTCCCAGCTTCATGTTATGCAACAATGGCCATCAGAGAGCTACTGAAGACATCAACATCGGTTGCTTTTCACAAAACGTTAAACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000154 GO:0000455 GO:0001522 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005730 GO:0005732 GO:0005737 GO:0006139 GO:0006364 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:0016072 GO:0016073 GO:0016556 GO:0016853 GO:0016866 GO:0022613 GO:0031118 GO:0031119 GO:0031120 GO:0031429 GO:0031974 GO:0031981 GO:0032991 GO:0034470 GO:0034641 GO:0034660 GO:0040031 GO:0042254 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043412 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044452 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0071840 GO:0072588 GO:0090304 GO:1901360 GO:1902494 GO:1990481 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

TruD

Protein Analysis

277

Amino Acids

30.53

Weight (kDa)

4.51

Isoelectric Point (pI)

33.41

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TruD	PF01142	1 - 48	5.9e-08	tRNA pseudouridine synthase D (TruD)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Image

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Publication-ready

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Orthologous Genes (Group: OG0006222)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G04820
fragaria_vesca	FvH4_6g03330 FvH4_6g03330 FvH4_6g03330 FvH4_6g03330 FvH4_6g03330 FvH4_6g03330 FvH4_6g03330
malus_domestica	MD04G1221700.v1.1 MD12G1237800.v1.1
prunus_persica	Prupe.6G340900_v2.0.a1
pyrus_communis	pycom04g19610 pycom04g19630 pycom12g21860 pycom12g21870
rosa_chinensis	RchiOBHm_Chr3g0451831
rosa_laevigata	RLG00000025646
rosa_multiflora	Rmu_sc0006510.1_g000014
rosa_roxburghii	Rroxscaffold_164G00436290 Rroxscaffold_6G00429000
rosa_rugosa	Rorug02G0636600 Rorug02G0636600
rosa_samantha	Rh3AG038100 Rh3BG039300 Rh3CG037800 Rh3DG038600
rosa_wichuraiana	Rw3G002840

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	568
AciI	CCGC	1 cut(s)	639
AclI	AACGTT	1 cut(s)	821
AclWI	GGATC	5 cut(s)	179, 575, 588, 681, 694
AcoI	YGGCCR	1 cut(s)	771
AcsI	RAATTY	1 cut(s)	419
AcuI	CTGAAG	1 cut(s)	809
AfaI	GTAC	1 cut(s)	405
AfiI	CCNNNNNNNGG	2 cut(s)	314, 683
AgsI	TTSAA	2 cut(s)	321, 482
AluBI	AGCT	8 cut(s)	27, 209, 235, 390, 673, 738, 752, 784
AluI	AGCT	8 cut(s)	27, 209, 235, 390, 673, 738, 752, 784
Alw26I	GTCTC	2 cut(s)	87, 113
AlwI	GGATC	5 cut(s)	179, 575, 588, 681, 694
AoxI	GGCC	1 cut(s)	771
ApeKI	GCWGC	2 cut(s)	44, 673
ApoI	RAATTY	1 cut(s)	419
AsuC2I	CCSGG	1 cut(s)	315
AsuHPI	GGTGA	3 cut(s)	142, 182, 653
AsuNHI	GCTAGC	1 cut(s)	563
AxyI	CCTNAGG	2 cut(s)	225, 708
BalI	TGGCCA	1 cut(s)	773
BamHI	GGATCC	2 cut(s)	580, 686
BbsI	GAAGAC	1 cut(s)	797
BbvI	GCAGC	2 cut(s)	56, 660
BccI	CCATC	3 cut(s)	500, 596, 782
BcnI	CCSGG	1 cut(s)	315
BcoDI	GTCTC	2 cut(s)	87, 113
BfaI	CTAG	1 cut(s)	564
BfmI	CTRYAG	1 cut(s)	258
BfuAI	ACCTGC	1 cut(s)	568
BisI	GCNGC	2 cut(s)	45, 674
BlsI	GCNGC	2 cut(s)	46, 675
Bme1390I	CCNGG	1 cut(s)	315
BmiI	GGNNCC	3 cut(s)	38, 582, 688
BmrFI	CCNGG	1 cut(s)	315
BmsI	GCATC	1 cut(s)	465
BmtI	GCTAGC	1 cut(s)	567
BpiI	GAAGAC	1 cut(s)	797
BplI	GAGNNNNNCTC	2 cut(s)	727, 759
BpuEI	CTTGAG	1 cut(s)	713
BpuMI	CCSGG	1 cut(s)	315
BsaXI	ACNNNNNCTCC	2 cut(s)	84, 114
Bsc4I	CCNNNNNNNGG	2 cut(s)	314, 683
Bse1I	ACTGG	3 cut(s)	445, 470, 588
Bse21I	CCTNAGG	2 cut(s)	225, 708
BseGI	GGATG	2 cut(s)	301, 385
BseLI	CCNNNNNNNGG	2 cut(s)	314, 683
BseMII	CTCAG	4 cut(s)	141, 216, 706, 722
BseNI	ACTGG	3 cut(s)	445, 470, 588
BseXI	GCAGC	2 cut(s)	56, 660
BseYI	CCCAGC	1 cut(s)	748
BshFI	GGCC	1 cut(s)	773
BsiSI	CCGG	2 cut(s)	315, 677
BslFI	GGGAC	1 cut(s)	671
BslI	CCNNNNNNNGG	2 cut(s)	314, 683
BsmAI	GTCTC	2 cut(s)	87, 113
BsmFI	GGGAC	1 cut(s)	671
BsnI	GGCC	1 cut(s)	773
Bsp143I	GATC	3 cut(s)	184, 580, 686
BspACI	CCGC	1 cut(s)	639
BspANI	GGCC	1 cut(s)	773
BspCNI	CTCAG	4 cut(s)	142, 217, 705, 721
BspHI	TCATGA	1 cut(s)	361
BspLI	GGNNCC	3 cut(s)	38, 582, 688
BspMAI	CTGCAG	1 cut(s)	262
BspMI	ACCTGC	1 cut(s)	568
BspOI	GCTAGC	1 cut(s)	567
BspPI	GGATC	5 cut(s)	179, 575, 588, 681, 694
BsrI	ACTGG	3 cut(s)	445, 470, 588
BssMI	GATC	3 cut(s)	184, 580, 686
Bst4CI	ACNGT	1 cut(s)	503
BstC8I	GCNNGC	1 cut(s)	565
BstDEI	CTNAG	5 cut(s)	150, 225, 236, 692, 708
BstF5I	GGATG	2 cut(s)	301, 385
BstKTI	GATC	3 cut(s)	187, 583, 689
BstMAI	GTCTC	2 cut(s)	87, 113
BstMBI	GATC	3 cut(s)	184, 580, 686
BstMWI	GCNNNNNNNGC	2 cut(s)	257, 770
BstSCI	CCNGG	1 cut(s)	313
BstSFI	CTRYAG	1 cut(s)	258
BstV1I	GCAGC	2 cut(s)	56, 660
BstV2I	GAAGAC	1 cut(s)	797
BstX2I	RGATCY	2 cut(s)	580, 686
BstYI	RGATCY	2 cut(s)	580, 686
Bsu36I	CCTNAGG	2 cut(s)	225, 708
BsuRI	GGCC	1 cut(s)	773
BtsCI	GGATG	2 cut(s)	301, 385
BtsIMutI	CAGTG	3 cut(s)	477, 508, 700
BveI	ACCTGC	1 cut(s)	568
Cac8I	GCNNGC	1 cut(s)	565
CciI	TCATGA	1 cut(s)	361
CseI	GACGC	1 cut(s)	462
Csp6I	GTAC	1 cut(s)	404
CviAII	CATG	4 cut(s)	41, 362, 614, 756
CviQI	GTAC	1 cut(s)	404
DdeI	CTNAG	5 cut(s)	150, 225, 236, 692, 708
DpnI	GATC	3 cut(s)	186, 582, 688
DpnII	GATC	3 cut(s)	184, 580, 686
EaeI	YGGCCR	1 cut(s)	771
Eco32I	GATATC	2 cut(s)	268, 652
Eco57I	CTGAAG	1 cut(s)	809
Eco81I	CCTNAGG	2 cut(s)	225, 708
EcoRI	GAATTC	1 cut(s)	419
EcoRV	GATATC	2 cut(s)	268, 652
FaeI	CATG	4 cut(s)	44, 365, 617, 759
FalI	AAGNNNNNCTT	2 cut(s)	722, 754
FaqI	GGGAC	1 cut(s)	671
FatI	CATG	4 cut(s)	40, 361, 613, 755
Fnu4HI	GCNGC	2 cut(s)	45, 674
FokI	GGATG	2 cut(s)	308, 392
Fsp4HI	GCNGC	2 cut(s)	45, 674
FspBI	CTAG	1 cut(s)	564
GluI	GCNGC	2 cut(s)	45, 674
GsaI	CCCAGC	1 cut(s)	752
HaeIII	GGCC	1 cut(s)	773
HapII	CCGG	2 cut(s)	315, 677
HgaI	GACGC	1 cut(s)	462
Hin1II	CATG	4 cut(s)	44, 365, 617, 759
HincII	GTYRAC	1 cut(s)	571
HindII	GTYRAC	1 cut(s)	571
HindIII	AAGCTT	1 cut(s)	233
HinfI	GANTC	1 cut(s)	324
HpaII	CCGG	2 cut(s)	315, 677
HphI	GGTGA	3 cut(s)	142, 182, 653
Hpy166II	GTNNAC	3 cut(s)	475, 526, 571
Hpy188I	TCNGA	2 cut(s)	151, 779
Hpy188III	TCNNGA	6 cut(s)	224, 271, 321, 335, 362, 710
Hpy8I	GTNNAC	3 cut(s)	475, 526, 571
Hpy99I	CGWCG	1 cut(s)	456
HpyAV	CCTTC	3 cut(s)	241, 314, 370
HpyCH4III	ACNGT	1 cut(s)	503
HpyCH4IV	ACGT	1 cut(s)	821
HpyCH4V	TGCA	5 cut(s)	13, 44, 260, 613, 764
HpyF10VI	GCNNNNNNNGC	2 cut(s)	257, 770
HpyF3I	CTNAG	5 cut(s)	150, 225, 236, 692, 708
HpySE526I	ACGT	1 cut(s)	821
Hsp92II	CATG	4 cut(s)	44, 365, 617, 759
Kzo9I	GATC	3 cut(s)	184, 580, 686
Lsp1109I	GCAGC	2 cut(s)	56, 660
LweI	GCATC	1 cut(s)	465
MaeI	CTAG	1 cut(s)	564
MaeII	ACGT	1 cut(s)	821
MaeIII	GTNAC	6 cut(s)	17, 130, 253, 436, 641, 695
MalI	GATC	3 cut(s)	186, 582, 688
MboI	GATC	3 cut(s)	184, 580, 686
MboII	GAAGA	5 cut(s)	73, 212, 275, 451, 802
MfeI	CAATTG	1 cut(s)	288
MflI	RGATCY	2 cut(s)	580, 686
MlsI	TGGCCA	1 cut(s)	773
MluCI	AATT	5 cut(s)	280, 288, 419, 445, 543
MluNI	TGGCCA	1 cut(s)	773
MlyI	GAGTC	1 cut(s)	333
MmeI	TCCRAC	1 cut(s)	664
MnlI	CCTC	6 cut(s)	220, 286, 528, 571, 701, 717
Mox20I	TGGCCA	1 cut(s)	773
MscI	TGGCCA	1 cut(s)	773
MseI	TTAA	1 cut(s)	824
Msp20I	TGGCCA	1 cut(s)	773
MspI	CCGG	2 cut(s)	315, 677
MspR9I	CCNGG	1 cut(s)	315
MunI	CAATTG	1 cut(s)	288
MwoI	GCNNNNNNNGC	2 cut(s)	257, 770
NciI	CCSGG	1 cut(s)	315
NdeII	GATC	3 cut(s)	184, 580, 686
NheI	GCTAGC	1 cut(s)	563
NlaIII	CATG	4 cut(s)	44, 365, 617, 759
NlaIV	GGNNCC	3 cut(s)	38, 582, 688
NmuCI	GTSAC	4 cut(s)	130, 436, 641, 695
PagI	TCATGA	1 cut(s)	361
PkrI	GCNGC	2 cut(s)	46, 675
PleI	GAGTC	1 cut(s)	332
PpsI	GAGTC	1 cut(s)	332
Psp1406I	AACGTT	1 cut(s)	821
PspFI	CCCAGC	1 cut(s)	748
PspN4I	GGNNCC	3 cut(s)	38, 582, 688
PstI	CTGCAG	1 cut(s)	262
PsuI	RGATCY	2 cut(s)	580, 686
RsaI	GTAC	1 cut(s)	405
RsaNI	GTAC	1 cut(s)	404
SaqAI	TTAA	1 cut(s)	824
SatI	GCNGC	2 cut(s)	45, 674
Sau3AI	GATC	3 cut(s)	184, 580, 686
SchI	GAGTC	1 cut(s)	333
ScrFI	CCNGG	1 cut(s)	315
SfaNI	GCATC	1 cut(s)	465
SfcI	CTRYAG	1 cut(s)	258
SmlI	CTYRAG	1 cut(s)	728
SmoI	CTYRAG	1 cut(s)	728
Sse9I	AATT	5 cut(s)	280, 288, 419, 445, 543
SsiI	CCGC	1 cut(s)	639
SspMI	CTAG	1 cut(s)	564
StyD4I	CCNGG	1 cut(s)	313
TaaI	ACNGT	1 cut(s)	503
TaiI	ACGT	1 cut(s)	824
TaqI	TCGA	1 cut(s)	451
TasI	AATT	5 cut(s)	280, 288, 419, 445, 543
Tru1I	TTAA	1 cut(s)	824
Tru9I	TTAA	1 cut(s)	824
TscAI	CASTG	3 cut(s)	477, 508, 700
TseFI	GTSAC	4 cut(s)	130, 436, 641, 695
TseI	GCWGC	2 cut(s)	44, 673
Tsp45I	GTSAC	4 cut(s)	130, 436, 641, 695
TspDTI	ATGAA	4 cut(s)	177, 350, 396, 744
TspRI	CASTG	3 cut(s)	477, 508, 700
XapI	RAATTY	1 cut(s)	419
XspI	CTAG	1 cut(s)	564

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