Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0003945

Physical Location & Seq

Genomic Coordinates Forward (+)

60047016 .. 60047330

Gene Structure 315 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00379810.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 315 bp

ATGGAGGAGGTGATAAAGGTGTTTGTGGAGATGGAGAGGAGTGGTTGTGAGGTTGATGTTATGACTTATACTACTTTGATTAGTGGATTTTGTAAGTGGGGGAAGATTGTGAGGAGTTATGAGATTTTGGATAGTATAATAAGGAAAGGGTTTACACCGAGTCGGATGACTTACTTGCGGATTATGTTGGCTCATGAGAAGAAGGAAGACTTGGAGGAGTGTATAATTGATGGGGCAGATGAGAAAGATTGGTTGCATGCACGATCTTGGTATTTAAACACGGTGATTCGATTGGCTTGCAAATTAGGGAGGTGA

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

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

104

Amino Acids

12.21

Weight (kDa)

6.12

Isoelectric Point (pI)

37.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	1 - 32	6.6e-10	PPR repeat family
PPR_3	PF13812	6 - 62	2.9e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	15 - 44	2.2e-09	PPR repeat
PPR_2	PF13041	19 - 58	2.6e-07	PPR repeat family
PPR	PF01535	22 - 51	2.2e-06	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0003945)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g05081
malus_domestica	MD10G1101700.v1.1
pyrus_communis	pycom09g04910 pycom15g38900
rosa_chinensis	RchiOBHm_Chr2g0123831 RchiOBHm_Chr4g0385181 RchiOBHm_Chr5g0064611
rosa_laevigata	RLG00000008165 RLG00000018415 RLG00000019614
rosa_multiflora	Rmu_sc0000571.1_g000023 Rmu_sc0001609.1_g000009 Rmu_sc0002893.1_g000021 Rmu_sc0003314.1_g000036 Rmu_sc0004010.1_g000014 Rmu_sc0008955.1_g000004 Rmu_sc0026245.1_g000002 Rmu_sc0027612.1_g000001
rosa_roxburghii	Rroxscaffold_5G00379810 Rroxscaffold_7G00189080
rosa_rugosa	Rorug03G0223000 Rorug06G0045100
rosa_samantha	Rh1CG355700 Rh1DG373200 Rh2BG315600 Rh3BG307100 Rh3CG368600 Rh3DG369600 Rh6BG404300 Rh6DG233700 Rh6DG396800 Rh6DG396900 Rh7AG211300 Rh7CG234500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	178
AjuI	GAANNNNNNNTTGG	2 cut(s)	194, 226
AsuHPI	GGTGA	2 cut(s)	22, 295
BbsI	GAAGAC	1 cut(s)	213
BccI	CCATC	2 cut(s)	25, 224
BcgI	CGANNNNNNTGC	2 cut(s)	279, 313
BpiI	GAAGAC	1 cut(s)	213
BsaXI	ACNNNNNCTCC	2 cut(s)	31, 61
BseGI	GGATG	1 cut(s)	171
BseRI	GAGGAG	4 cut(s)	20, 52, 127, 230
Bsp143I	GATC	1 cut(s)	263
BspACI	CCGC	1 cut(s)	178
BspHI	TCATGA	1 cut(s)	193
BssMI	GATC	1 cut(s)	263
Bst4CI	ACNGT	1 cut(s)	283
BstC8I	GCNNGC	2 cut(s)	258, 298
BstF5I	GGATG	1 cut(s)	171
BstKTI	GATC	1 cut(s)	266
BstMBI	GATC	1 cut(s)	263
BstNSI	RCATGY	1 cut(s)	260
BstV2I	GAAGAC	1 cut(s)	213
BtsCI	GGATG	1 cut(s)	171
Cac8I	GCNNGC	2 cut(s)	258, 298
CciI	TCATGA	1 cut(s)	193
CviAII	CATG	2 cut(s)	194, 257
CviJI	RGCY	2 cut(s)	191, 296
CviKI_1	RGCY	2 cut(s)	191, 296
DpnI	GATC	1 cut(s)	265
DpnII	GATC	1 cut(s)	263
DraI	TTTAAA	1 cut(s)	276
FaeI	CATG	2 cut(s)	197, 260
FaiI	YATR	8 cut(s)	62, 69, 120, 137, 185, 195, 224, 258
FalI	AAGNNNNNCTT	2 cut(s)	194, 226
FatI	CATG	2 cut(s)	193, 256
FokI	GGATG	1 cut(s)	178
Hin1II	CATG	2 cut(s)	197, 260
HinfI	GANTC	2 cut(s)	160, 286
HphI	GGTGA	2 cut(s)	22, 295
Hpy166II	GTNNAC	1 cut(s)	153
Hpy188I	TCNGA	1 cut(s)	165
Hpy188III	TCNNGA	1 cut(s)	194
Hpy8I	GTNNAC	1 cut(s)	153
HpyAV	CCTTC	1 cut(s)	196
HpyCH4III	ACNGT	1 cut(s)	283
HpyCH4V	TGCA	3 cut(s)	256, 260, 300
Hsp92II	CATG	2 cut(s)	197, 260
Kzo9I	GATC	1 cut(s)	263
MalI	GATC	1 cut(s)	265
MboI	GATC	1 cut(s)	263
MboII	GAAGA	3 cut(s)	115, 211, 218
MluCI	AATT	2 cut(s)	225, 302
MlyI	GAGTC	1 cut(s)	169
MmeI	TCCRAC	1 cut(s)	143
MnlI	CCTC	5 cut(s)	30, 43, 105, 208, 303
MseI	TTAA	1 cut(s)	275
NdeII	GATC	1 cut(s)	263
NlaIII	CATG	2 cut(s)	197, 260
NspI	RCATGY	1 cut(s)	260
PaeI	GCATGC	1 cut(s)	260
PagI	TCATGA	1 cut(s)	193
PfeI	GAWTC	1 cut(s)	286
PleI	GAGTC	1 cut(s)	168
PpsI	GAGTC	1 cut(s)	168
SaqAI	TTAA	1 cut(s)	275
Sau3AI	GATC	1 cut(s)	263
SchI	GAGTC	1 cut(s)	169
SetI	ASST	4 cut(s)	12, 21, 54, 314
SgeI	CNNG	9 cut(s)	171, 187, 206, 223, 269, 273, 279, 292, 309
SphI	GCATGC	1 cut(s)	260
Sse9I	AATT	2 cut(s)	225, 302
SsiI	CCGC	1 cut(s)	178
TaaI	ACNGT	1 cut(s)	283
TaqI	TCGA	1 cut(s)	289
TasI	AATT	2 cut(s)	225, 302
TfiI	GAWTC	1 cut(s)	286
Tru1I	TTAA	1 cut(s)	275
Tru9I	TTAA	1 cut(s)	275
XceI	RCATGY	1 cut(s)	260

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