Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0000712

Physical Location & Seq

Genomic Coordinates Reverse (-)

58728400 .. 58732968

Gene Structure 4569 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG271200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 522 bp

ATGTTGAGATGGTCGAGGTTATGCATGACAAGACTACTGGGAGAAGCAGAGGATTTGGGTTTGTGTCTCACCATTTGGGATCACGAAATTTCGAGGATTGCCGAATTGCTTAGTCTAAATGTTAGAACTGCATTGAACCTAGCGTTTGGTCGATTGAAAGATTTCAGTGGTGGTTTTGAAAGCGCGGAGCTTTCGGTGATTCTGTGCAATGATGAGTGTATGAGAAAACGTAACAAGGAATGGAGAGACGAGGACCGTGCTACTGGTGTTGTTTCCAAGTCCAAGCATGTGCCTGGTCTTAAGATTCCAAATGTTGTGTTGGGTGACATTGTGATTTCTGTTGAGATGGCGGCAAGGCAAGCAGAGCAAAGAGGCCACACACTTCTTGATGAGATGCGCCTTCTCATGGTCATATTAGCTGAAGCTTTGATTTGTGTTCTTCTACATGAGATAACATTCTTCATTGAGCTTTTTGGGCCTGCAACGAAGTTCGAAGCCTTATTGGTTAATAGCAGGCTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004540 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0009507 GO:0009536 GO:0009657 GO:0009658 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016072 GO:0016787 GO:0016788 GO:0022613 GO:0034470 GO:0034641 GO:0034660 GO:0042254 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044085 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0140098 GO:1901259 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Hydrolase_3 UPF0054

Protein Analysis

173

Amino Acids

19.55

Weight (kDa)

5.84

Isoelectric Point (pI)

38.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
YbeY	PF02130	59 - 137	9.2e-15	Endoribonuclease YbeY

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000712)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G15960 AT1G80830 AT1G80830
fragaria_vesca	FvH4_2g27530 FvH4_6g28670 FvH4_6g28670 FvH4_6g28670 FvH4_6g28670 FvH4_6g28670 FvH4_6g28670 FvH4_6g28670 FvH4_6g28670 FvH4_6g28670 FvH4_6g28670
malus_domestica	MD00G1030300.v1.1 MD00G1042000.v1.1 MD14G1158400.v1.1 MD17G1222500.v1.1
prunus_persica	Prupe.1G492500_v2.0.a1 Prupe.3G097800_v2.0.a1 Prupe.3G097800_v2.0.a1 Prupe.3G097800_v2.0.a1 Prupe.3G097800_v2.0.a1 Prupe.3G097800_v2.0.a1 Prupe.3G097800_v2.0.a1 Prupe.3G097800_v2.0.a1 Prupe.3G097800_v2.0.a1 Prupe.3G097800_v2.0.a1
pyrus_communis	pycom116g00050 pycom14g13220 pycom17g22680
rosa_chinensis	RchiOBHm_Chr2g0133071 RchiOBHm_Chr6g0271151 RchiOBHm_Chr6g0296361 RchiOBHm_Chr6g0310261
rosa_laevigata	RLG00000011698 RLG00000011701 RLG00000019306
rosa_multiflora	Rmu_sc0000127.1_g000013 Rmu_sc0000279.1_g000004 Rmu_sc0008096.1_g000001 Rmu_sc0037233.1_g000001
rosa_roxburghii	Rroxscaffold_2G00111550 Rroxscaffold_2G00136120 Rroxscaffold_7G00176290 Rroxscaffold_7G00178510
rosa_rugosa	Rorug01G0010700 Rorug01G0010800 Rorug01G0062600 Rorug01G0087600 Rorug02G0179300 Rorug02G0309300 Rorug02G0309400 Rorug02G0309500 Rorug02G0309600 Rorug03G0345700 Rorug05G0313000 Rorug06G0261600.1
rosa_samantha	Rh2AG361900 Rh2BG367600 Rh2CG345100 Rh2DG384500 Rh3AG218600 Rh4AG271200 Rh5AG321100 Rh6AG181200 Rh6AG373200 Rh6AG492800 Rh6CG386600 Rh7DG314800
rosa_wichuraiana	Rw2G029420 Rw6G032540 Rw6G045020

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	185
AciI	CCGC	2 cut(s)	185, 350
AclWI	GGATC	1 cut(s)	87
AcsI	RAATTY	1 cut(s)	87
AcuI	CTGAAG	1 cut(s)	441
AfiI	CCNNNNNNNGG	1 cut(s)	406
AflII	CTTAAG	1 cut(s)	299
AgsI	TTSAA	3 cut(s)	136, 157, 179
AjnI	CCWGG	1 cut(s)	292
AluBI	AGCT	4 cut(s)	190, 419, 425, 469
AluI	AGCT	4 cut(s)	190, 419, 425, 469
Alw26I	GTCTC	2 cut(s)	71, 240
AlwI	GGATC	1 cut(s)	87
AoxI	GGCC	2 cut(s)	373, 476
ApoI	RAATTY	1 cut(s)	87
Asp700I	GAANNNNTTC	1 cut(s)	161
AspLEI	GCGC	2 cut(s)	185, 399
AspS9I	GGNCC	2 cut(s)	253, 476
AsuHPI	GGTGA	3 cut(s)	61, 208, 335
AsuII	TTCGAA	1 cut(s)	492
AvaII	GGWCC	1 cut(s)	253
BccI	CCATC	2 cut(s)	3, 340
BcgI	CGANNNNNNTGC	2 cut(s)	239, 273
BciT130I	CCWGG	1 cut(s)	294
BcoDI	GTCTC	2 cut(s)	71, 240
BfaI	CTAG	1 cut(s)	140
BfrI	CTTAAG	1 cut(s)	299
BisI	GCNGC	1 cut(s)	351
BlsI	GCNGC	1 cut(s)	352
Bme1390I	CCNGG	1 cut(s)	294
Bme18I	GGWCC	1 cut(s)	253
BmgT120I	GGNCC	2 cut(s)	253, 476
BmrFI	CCNGG	1 cut(s)	294
BmrI	ACTGGG	1 cut(s)	47
BmsI	GCATC	1 cut(s)	384
BmuI	ACTGGG	1 cut(s)	47
Bpu14I	TTCGAA	1 cut(s)	492
Bsc4I	CCNNNNNNNGG	1 cut(s)	406
Bse1I	ACTGG	2 cut(s)	42, 268
Bse3DI	GCAATG	1 cut(s)	214
BseBI	CCWGG	1 cut(s)	294
BseLI	CCNNNNNNNGG	1 cut(s)	406
BseMI	GCAATG	1 cut(s)	214
BseNI	ACTGG	2 cut(s)	42, 268
Bsh1236I	CGCG	1 cut(s)	185
BshFI	GGCC	2 cut(s)	375, 478
BslI	CCNNNNNNNGG	1 cut(s)	406
BsmAI	GTCTC	2 cut(s)	71, 240
BsmBI	CGTCTC	1 cut(s)	240
BsnI	GGCC	2 cut(s)	375, 478
Bsp119I	TTCGAA	1 cut(s)	492
Bsp143I	GATC	1 cut(s)	79
BspACI	CCGC	2 cut(s)	185, 350
BspANI	GGCC	2 cut(s)	375, 478
BspFNI	CGCG	1 cut(s)	185
BspPI	GGATC	1 cut(s)	87
BspT104I	TTCGAA	1 cut(s)	492
BspTI	CTTAAG	1 cut(s)	299
BsrDI	GCAATG	1 cut(s)	214
BsrI	ACTGG	2 cut(s)	42, 268
BssMI	GATC	1 cut(s)	79
Bst2UI	CCWGG	1 cut(s)	294
Bst4CI	ACNGT	1 cut(s)	257
BstAFI	CTTAAG	1 cut(s)	299
BstBI	TTCGAA	1 cut(s)	492
BstC8I	GCNNGC	3 cut(s)	360, 480, 515
BstDEI	CTNAG	1 cut(s)	110
BstFNI	CGCG	1 cut(s)	185
BstHHI	GCGC	2 cut(s)	185, 399
BstKTI	GATC	1 cut(s)	82
BstMAI	GTCTC	2 cut(s)	71, 240
BstMBI	GATC	1 cut(s)	79
BstMWI	GCNNNNNNNGC	3 cut(s)	359, 364, 475
BstNI	CCWGG	1 cut(s)	294
BstNSI	RCATGY	1 cut(s)	290
BstSCI	CCNGG	1 cut(s)	292
BstUI	CGCG	1 cut(s)	185
BsuRI	GGCC	2 cut(s)	375, 478
BtsIMutI	CAGTG	1 cut(s)	172
Cac8I	GCNNGC	3 cut(s)	360, 480, 515
CfoI	GCGC	2 cut(s)	185, 399
Cfr13I	GGNCC	2 cut(s)	253, 476
CviAII	CATG	4 cut(s)	25, 287, 406, 446
CviJI	RGCY	8 cut(s)	190, 375, 419, 425, 469, 478, 497, 517
CviKI_1	RGCY	8 cut(s)	190, 375, 419, 425, 469, 478, 497, 517
DdeI	CTNAG	1 cut(s)	110
DpnI	GATC	1 cut(s)	81
DpnII	GATC	1 cut(s)	79
Eco47I	GGWCC	1 cut(s)	253
Eco57I	CTGAAG	1 cut(s)	441
EcoRII	CCWGG	1 cut(s)	292
EcoT22I	ATGCAT	1 cut(s)	26
Esp3I	CGTCTC	1 cut(s)	240
FaeI	CATG	4 cut(s)	28, 290, 409, 449
FaiI	YATR	7 cut(s)	22, 26, 221, 288, 407, 413, 447
FatI	CATG	4 cut(s)	24, 286, 405, 445
Fnu4HI	GCNGC	1 cut(s)	351
Fsp4HI	GCNGC	1 cut(s)	351
FspBI	CTAG	1 cut(s)	140
GlaI	GCGC	2 cut(s)	184, 398
GluI	GCNGC	1 cut(s)	351
HaeIII	GGCC	2 cut(s)	375, 478
HhaI	GCGC	2 cut(s)	185, 399
Hin1II	CATG	4 cut(s)	28, 290, 409, 449
Hin6I	GCGC	2 cut(s)	183, 397
HinP1I	GCGC	2 cut(s)	183, 397
HindIII	AAGCTT	1 cut(s)	423
HinfI	GANTC	2 cut(s)	199, 304
HphI	GGTGA	3 cut(s)	61, 208, 335
Hpy188III	TCNNGA	2 cut(s)	83, 386
HpyAV	CCTTC	1 cut(s)	410
HpyCH4III	ACNGT	1 cut(s)	257
HpyCH4IV	ACGT	1 cut(s)	229
HpyCH4V	TGCA	4 cut(s)	24, 131, 207, 482
HpyF10VI	GCNNNNNNNGC	3 cut(s)	359, 364, 475
HpyF3I	CTNAG	1 cut(s)	110
HpySE526I	ACGT	1 cut(s)	229
Hsp92II	CATG	4 cut(s)	28, 290, 409, 449
HspAI	GCGC	2 cut(s)	183, 397
Kzo9I	GATC	1 cut(s)	79
LmnI	GCTCC	1 cut(s)	187
LpnPI	CCDG	6 cut(s)	23, 249, 279, 306, 492, 499
LweI	GCATC	1 cut(s)	384
MaeI	CTAG	1 cut(s)	140
MaeII	ACGT	1 cut(s)	229
MaeIII	GTNAC	2 cut(s)	230, 323
MalI	GATC	1 cut(s)	81
MboI	GATC	1 cut(s)	79
MboII	GAAGA	2 cut(s)	431, 451
MluCI	AATT	2 cut(s)	87, 104
MnlI	CCTC	5 cut(s)	9, 43, 87, 244, 365
Mph1103I	ATGCAT	1 cut(s)	26
MroXI	GAANNNNTTC	1 cut(s)	161
MseI	TTAA	2 cut(s)	300, 507
MspCI	CTTAAG	1 cut(s)	299
MspR9I	CCNGG	1 cut(s)	294
MvaI	CCWGG	1 cut(s)	294
MvnI	CGCG	1 cut(s)	185
MwoI	GCNNNNNNNGC	3 cut(s)	359, 364, 475
NdeII	GATC	1 cut(s)	79
NlaIII	CATG	4 cut(s)	28, 290, 409, 449
NmuCI	GTSAC	1 cut(s)	323
NsiI	ATGCAT	1 cut(s)	26
NspI	RCATGY	1 cut(s)	290
NspV	TTCGAA	1 cut(s)	492
PdmI	GAANNNNTTC	1 cut(s)	161
PfeI	GAWTC	2 cut(s)	199, 304
PkrI	GCNGC	1 cut(s)	352
Psp6I	CCWGG	1 cut(s)	292
PspGI	CCWGG	1 cut(s)	292
PspPI	GGNCC	2 cut(s)	253, 476
SaqAI	TTAA	2 cut(s)	300, 507
SatI	GCNGC	1 cut(s)	351
Sau3AI	GATC	1 cut(s)	79
Sau96I	GGNCC	2 cut(s)	253, 476
ScrFI	CCNGG	1 cut(s)	294
SetI	ASST	7 cut(s)	20, 141, 192, 232, 421, 427, 471
SfaNI	GCATC	1 cut(s)	384
SfuI	TTCGAA	1 cut(s)	492
SinI	GGWCC	1 cut(s)	253
SmlI	CTYRAG	1 cut(s)	299
SmoI	CTYRAG	1 cut(s)	299
Sse9I	AATT	2 cut(s)	87, 104
SsiI	CCGC	2 cut(s)	185, 350
SspMI	CTAG	1 cut(s)	140
StyD4I	CCNGG	1 cut(s)	292
TaaI	ACNGT	1 cut(s)	257
TaiI	ACGT	1 cut(s)	232
TaqI	TCGA	4 cut(s)	14, 92, 151, 492
TasI	AATT	2 cut(s)	87, 104
TauI	GCSGC	1 cut(s)	353
TfiI	GAWTC	2 cut(s)	199, 304
Tru1I	TTAA	2 cut(s)	300, 507
Tru9I	TTAA	2 cut(s)	300, 507
TscAI	CASTG	1 cut(s)	172
TseFI	GTSAC	1 cut(s)	323
Tsp45I	GTSAC	1 cut(s)	323
TspDTI	ATGAA	1 cut(s)	451
TspRI	CASTG	1 cut(s)	172
Vha464I	CTTAAG	1 cut(s)	299
VpaK11BI	GGWCC	1 cut(s)	253
XapI	RAATTY	1 cut(s)	87
XceI	RCATGY	1 cut(s)	290
XmnI	GAANNNNTTC	1 cut(s)	161
XspI	CTAG	1 cut(s)	140
Zsp2I	ATGCAT	1 cut(s)	26

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