Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0006285

Physical Location & Seq

Genomic Coordinates Reverse (-)

12514400 .. 12514777

Gene Structure 378 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00392780.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 378 bp

ATGTGTCTTGATTTGTTTACTTACAGTGTTTTAATAAATGGGTTGTGTAAGGAAGGGAGGTTGGATGATGCAAATGGGTTGTTTGATGAAATGTGTGTGAAGGGTTTGGTTCTGAATGACGTCATATTTACCACTTTGATTGATGGCCAATGTAAGAATGGGAATCTTGATCTGGCGCTGGAAATGTATCAGAAAATGTTAGGGAGAGGTATCAAACCAGATATAGTTACATACAATACACTCATAAATGGCCTTTGCAAGGTTGGAGATATGAAAGGAGCTAAGAAGCTTGTTGAGGAGATGAATACCAGAGGTTTCAAGCGCAACAAGATCACTTATACTACACTTATTGATGGATCTACAAAGAAGGAGAGTTAG

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

His_Phos_1 PPR PPR_1 PPR_2 PPR_3 p450

Protein Analysis

125

Amino Acids

13.91

Weight (kDa)

7.55

Isoelectric Point (pI)

6.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	2 - 31	7.2e-13	PPR repeat
PPR_2	PF13041	4 - 40	2.7e-09	PPR repeat family
PPR	PF01535	6 - 36	1.9e-09	PPR repeat
PPR_long	PF17177	20 - 122	2.7e-07	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	27 - 83	2.9e-11	Pentatricopeptide repeat domain
PPR_1	PF12854	34 - 66	1.9e-09	PPR repeat
PPR_2	PF13041	39 - 87	5.9e-19	PPR repeat family
PPR	PF01535	41 - 71	4.1e-08	PPR repeat
PPR_1	PF12854	69 - 101	8.4e-16	PPR repeat
PPR_2	PF13041	73 - 119	1.4e-18	PPR repeat family
PPR	PF01535	76 - 106	1.3e-09	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: OG0006285)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G22670
fragaria_vesca	FvH4_4g00721
malus_domestica	MD13G1197300.v1.1
prunus_persica	Prupe.1G018400_v2.0.a1
pyrus_communis	pycom13g17020
rosa_chinensis	RchiOBHm_Chr1g0322101 RchiOBHm_Chr4g0386451
rosa_laevigata	RLG00000010131 RLG00000010157 RLG00000010161
rosa_multiflora	Rmu_co8274927.1_g000001 Rmu_sc0001942.1_g000008 Rmu_sc0001942.1_g000027 Rmu_sc0001942.1_g000051 Rmu_sc0002785.1_g000008 Rmu_sc0003786.1_g000023 Rmu_sc0006648.1_g000016 Rmu_sc0036937.1_g000001 Rmu_ssc0000272.1_g000008 Rmu_ssc0000272.1_g000009
rosa_roxburghii	Rroxscaffold_5G00333960 Rroxscaffold_6G00392780
rosa_samantha	Rh1AG049600 Rh4BG009300 Rh4CG014300 Rh4DG010100
rosa_wichuraiana	Rw4G000030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	123
AclWI	GGATC	1 cut(s)	364
AcoI	YGGCCR	1 cut(s)	145
AcyI	GRCGYC	1 cut(s)	120
AfiI	CCNNNNNNNGG	1 cut(s)	259
AgsI	TTSAA	1 cut(s)	319
AluBI	AGCT	2 cut(s)	281, 289
AluI	AGCT	2 cut(s)	281, 289
AlwI	GGATC	1 cut(s)	364
AoxI	GGCC	2 cut(s)	145, 250
AspLEI	GCGC	2 cut(s)	178, 324
BalI	TGGCCA	1 cut(s)	147
BccI	CCATC	2 cut(s)	137, 347
BfoI	RGCGCY	1 cut(s)	179
BmsI	GCATC	1 cut(s)	58
BsaHI	GRCGYC	1 cut(s)	120
Bsc4I	CCNNNNNNNGG	1 cut(s)	259
BseGI	GGATG	1 cut(s)	70
BseLI	CCNNNNNNNGG	1 cut(s)	259
BseRI	GAGGAG	1 cut(s)	311
BshFI	GGCC	2 cut(s)	147, 252
BslI	CCNNNNNNNGG	1 cut(s)	259
BsnI	GGCC	2 cut(s)	147, 252
Bsp143I	GATC	3 cut(s)	169, 330, 356
BspANI	GGCC	2 cut(s)	147, 252
BspPI	GGATC	1 cut(s)	364
BssMI	GATC	3 cut(s)	169, 330, 356
BssNI	GRCGYC	1 cut(s)	120
Bst4CI	ACNGT	1 cut(s)	26
BstACI	GRCGYC	1 cut(s)	120
BstDEI	CTNAG	1 cut(s)	282
BstENI	CCTNNNNNAGG	1 cut(s)	257
BstF5I	GGATG	1 cut(s)	70
BstH2I	RGCGCY	1 cut(s)	179
BstHHI	GCGC	2 cut(s)	178, 324
BstKTI	GATC	3 cut(s)	172, 333, 359
BstMBI	GATC	3 cut(s)	169, 330, 356
BstX2I	RGATCY	1 cut(s)	356
BstYI	RGATCY	1 cut(s)	356
BsuRI	GGCC	2 cut(s)	147, 252
BtsCI	GGATG	1 cut(s)	70
BtsIMutI	CAGTG	1 cut(s)	31
CfoI	GCGC	2 cut(s)	178, 324
CspCI	CAANNNNNGTGG	2 cut(s)	121, 156
CviJI	RGCY	4 cut(s)	147, 252, 281, 289
CviKI_1	RGCY	4 cut(s)	147, 252, 281, 289
DdeI	CTNAG	1 cut(s)	282
DpnI	GATC	3 cut(s)	171, 332, 358
DpnII	GATC	3 cut(s)	169, 330, 356
EaeI	YGGCCR	1 cut(s)	145
EcoNI	CCTNNNNNAGG	1 cut(s)	257
FaiI	YATR	6 cut(s)	125, 224, 232, 245, 272, 339
FokI	GGATG	1 cut(s)	77
GlaI	GCGC	2 cut(s)	177, 323
HaeII	RGCGCY	1 cut(s)	179
HaeIII	GGCC	2 cut(s)	147, 252
HhaI	GCGC	2 cut(s)	178, 324
Hin1I	GRCGYC	1 cut(s)	120
Hin6I	GCGC	2 cut(s)	176, 322
HinP1I	GCGC	2 cut(s)	176, 322
HindIII	AAGCTT	1 cut(s)	287
HinfI	GANTC	1 cut(s)	163
Hpy166II	GTNNAC	1 cut(s)	18
Hpy188I	TCNGA	2 cut(s)	114, 192
Hpy188III	TCNNGA	2 cut(s)	8, 167
Hpy8I	GTNNAC	1 cut(s)	18
HpyAV	CCTTC	3 cut(s)	47, 94, 361
HpyCH4III	ACNGT	1 cut(s)	26
HpyCH4IV	ACGT	1 cut(s)	120
HpyCH4V	TGCA	2 cut(s)	71, 258
HpyF3I	CTNAG	1 cut(s)	282
HpySE526I	ACGT	1 cut(s)	120
Hsp92I	GRCGYC	1 cut(s)	120
HspAI	GCGC	2 cut(s)	176, 322
Kzo9I	GATC	3 cut(s)	169, 330, 356
LmnI	GCTCC	1 cut(s)	278
LpnPI	CCDG	4 cut(s)	158, 164, 231, 322
LweI	GCATC	1 cut(s)	58
MaeII	ACGT	1 cut(s)	120
MaeIII	GTNAC	1 cut(s)	226
MalI	GATC	3 cut(s)	171, 332, 358
MboI	GATC	3 cut(s)	169, 330, 356
MflI	RGATCY	1 cut(s)	356
MlsI	TGGCCA	1 cut(s)	147
MluNI	TGGCCA	1 cut(s)	147
MmeI	TCCRAC	2 cut(s)	42, 244
MnlI	CCTC	4 cut(s)	51, 200, 289, 305
Mox20I	TGGCCA	1 cut(s)	147
MscI	TGGCCA	1 cut(s)	147
MseI	TTAA	1 cut(s)	32
Msp20I	TGGCCA	1 cut(s)	147
NdeII	GATC	3 cut(s)	169, 330, 356
PfeI	GAWTC	1 cut(s)	163
PsuI	RGATCY	1 cut(s)	356
SaqAI	TTAA	1 cut(s)	32
Sau3AI	GATC	3 cut(s)	169, 330, 356
SetI	ASST	7 cut(s)	62, 123, 211, 264, 283, 291, 316
SfaNI	GCATC	1 cut(s)	58
TaaI	ACNGT	1 cut(s)	26
TaiI	ACGT	1 cut(s)	123
TfiI	GAWTC	1 cut(s)	163
Tru1I	TTAA	1 cut(s)	32
Tru9I	TTAA	1 cut(s)	32
TscAI	CASTG	1 cut(s)	31
TspDTI	ATGAA	3 cut(s)	102, 287, 317
TspRI	CASTG	1 cut(s)	31
XagI	CCTNNNNNAGG	1 cut(s)	257
XcmI	CCANNNNNNNNNTGG	1 cut(s)	155
ZraI	GACGTC	1 cut(s)	121

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