Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0000530

Physical Location & Seq

Genomic Coordinates Forward (+)

33998089 .. 33998405

Gene Structure 317 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG178900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 210 bp

ATGGATGGGTATGTGAAGCAGGGGAAGCTGGTTGAGGCTATTAAGGTTATGGATGAGATGGAGGACAATGGGATTGGTTCGAATGAGGTTACTTATGGAGTTATGATTGAAGCTTATTGTAAGGAAAAGAGGTTGGGTGAAGCGGTTAATTTGCTTAATGATATGGCGGAGAAGAGGTATATACCGAGCTCGGCGCTCTGTTGTAAGTAA

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

69

Amino Acids

7.69

Weight (kDa)

4.82

Isoelectric Point (pI)

24.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	1 - 41	1.4e-12	PPR repeat family
PPR	PF01535	1 - 25	9.2e-06	PPR repeat
TPR_24	PF23276	12 - 64	2.6e-06	Fungal tetratrico peptide repeats
PPR_1	PF12854	24 - 55	7.7e-09	PPR repeat
PPR_2	PF13041	28 - 64	8.4e-09	PPR repeat family
PPR	PF01535	30 - 58	1.5e-07	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: OG0000530)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G16420 AT5G16420 AT5G16420 AT5G16420
fragaria_vesca	FvH4_7g08341 FvH4_7g08360
malus_domestica	MD02G1232100.v1.1 MD07G1081300.v1.1
prunus_persica	Prupe.2G106500_v2.0.a1
pyrus_communis	pycom02g20040
rosa_chinensis	RchiOBHm_Chr1g0340331 RchiOBHm_Chr1g0340431 RchiOBHm_Chr1g0340441 RchiOBHm_Chr1g0340491 RchiOBHm_Chr1g0340531 RchiOBHm_Chr1g0340541 RchiOBHm_Chr1g0340561 RchiOBHm_Chr1g0340621 RchiOBHm_Chr1g0340661 RchiOBHm_Chr1g0340691
rosa_laevigata	RLG00000029013 RLG00000029018 RLG00000029020 RLG00000029024 RLG00000029026 RLG00000029029 RLG00000029030 RLG00000029032 RLG00000029033
rosa_multiflora	Rmu_sc0000566.1_g000026 Rmu_sc0000566.1_g000034 Rmu_sc0000566.1_g000054 Rmu_sc0001836.1_g000016 Rmu_sc0001836.1_g000022 Rmu_sc0001836.1_g000023 Rmu_sc0001836.1_g000028 Rmu_sc0001836.1_g000058 Rmu_sc0001946.1_g000004 Rmu_sc0002595.1_g000001 Rmu_sc0002595.1_g000005 Rmu_sc0005167.1_g000003 Rmu_sc0005167.1_g000009 Rmu_sc0005167.1_g000018 Rmu_sc0024761.1_g000004
rosa_roxburghii	Rroxscaffold_4G00311170 Rroxscaffold_4G00311190 Rroxscaffold_4G00311250 Rroxscaffold_4G00315930 Rroxscaffold_4G00315960 Rroxscaffold_5G00353270
rosa_rugosa	Rorug01G0162000.1 Rorug01G0162500.1 Rorug01G0162800.1 Rorug01G0163000.1 Rorug01G0163400.1 Rorug01G0163700.1 Rorug01G0164100.1 Rorug01G0164300 Rorug05G0484800
rosa_samantha	Rh1AG177800 Rh1AG178000 Rh1AG178300 Rh1AG178600 Rh1AG178900 Rh1BG145300 Rh1BG145600 Rh1BG145800 Rh1BG145900 Rh1BG146000 Rh1BG146700 Rh1CG165100 Rh1CG165200 Rh1CG165400 Rh1CG165600 Rh1CG165700 Rh1CG165900 Rh1DG177500 Rh1DG177600 Rh1DG177800 Rh1DG177900 Rh1DG178000 Rh1DG178800
rosa_wichuraiana	Rw0G006210 Rw1G014800 Rw1G014890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	143, 167
AgsI	TTSAA	1 cut(s)	110
AluBI	AGCT	3 cut(s)	28, 113, 189
AluI	AGCT	3 cut(s)	28, 113, 189
Alw21I	GWGCWC	1 cut(s)	191
AspLEI	GCGC	1 cut(s)	196
AsuHPI	GGTGA	1 cut(s)	149
AsuII	TTCGAA	1 cut(s)	80
BanII	GRGCYC	1 cut(s)	191
Bbv12I	GWGCWC	1 cut(s)	191
BccI	CCATC	1 cut(s)	52
BfoI	RGCGCY	1 cut(s)	197
Bpu14I	TTCGAA	1 cut(s)	80
BsaXI	ACNNNNNCTCC	2 cut(s)	161, 191
BseGI	GGATG	2 cut(s)	10, 58
BsiHKAI	GWGCWC	1 cut(s)	191
Bsp119I	TTCGAA	1 cut(s)	80
Bsp1286I	GDGCHC	1 cut(s)	191
BspACI	CCGC	2 cut(s)	143, 167
BspT104I	TTCGAA	1 cut(s)	80
Bst6I	CTCTTC	1 cut(s)	167
BstBI	TTCGAA	1 cut(s)	80
BstF5I	GGATG	2 cut(s)	10, 58
BstH2I	RGCGCY	1 cut(s)	197
BstHHI	GCGC	1 cut(s)	196
BstMWI	GCNNNNNNNGC	1 cut(s)	25
BtsCI	GGATG	2 cut(s)	10, 58
CfoI	GCGC	1 cut(s)	196
CviJI	RGCY	4 cut(s)	28, 38, 113, 189
CviKI_1	RGCY	4 cut(s)	28, 38, 113, 189
Eam1104I	CTCTTC	1 cut(s)	167
EarI	CTCTTC	1 cut(s)	167
EciI	GGCGGA	1 cut(s)	182
Ecl136II	GAGCTC	1 cut(s)	189
Eco24I	GRGCYC	1 cut(s)	191
Eco53kI	GAGCTC	1 cut(s)	189
EcoICRI	GAGCTC	1 cut(s)	189
EcoT38I	GRGCYC	1 cut(s)	191
FaiI	YATR	7 cut(s)	12, 50, 96, 104, 164, 180, 182
FokI	GGATG	2 cut(s)	17, 65
FriOI	GRGCYC	1 cut(s)	191
GlaI	GCGC	1 cut(s)	195
HaeII	RGCGCY	1 cut(s)	197
HhaI	GCGC	1 cut(s)	196
Hin6I	GCGC	1 cut(s)	194
HinP1I	GCGC	1 cut(s)	194
HindIII	AAGCTT	1 cut(s)	111
HphI	GGTGA	1 cut(s)	149
HpyF10VI	GCNNNNNNNGC	1 cut(s)	25
HspAI	GCGC	1 cut(s)	194
LpnPI	CCDG	2 cut(s)	5, 14
MaeIII	GTNAC	1 cut(s)	88
MboII	GAAGA	1 cut(s)	184
MhlI	GDGCHC	1 cut(s)	191
MluCI	AATT	1 cut(s)	148
MnlI	CCTC	5 cut(s)	28, 55, 79, 123, 168
MseI	TTAA	3 cut(s)	42, 147, 156
MwoI	GCNNNNNNNGC	1 cut(s)	25
NmeAIII	GCCGAG	1 cut(s)	170
NspV	TTCGAA	1 cut(s)	80
Psp124BI	GAGCTC	1 cut(s)	191
SacI	GAGCTC	1 cut(s)	191
SaqAI	TTAA	3 cut(s)	42, 147, 156
SduI	GDGCHC	1 cut(s)	191
SetI	ASST	7 cut(s)	30, 48, 90, 115, 134, 179, 191
SfuI	TTCGAA	1 cut(s)	80
SgeI	CNNG	4 cut(s)	32, 41, 198, 202
Sse9I	AATT	1 cut(s)	148
SsiI	CCGC	2 cut(s)	143, 167
SstI	GAGCTC	1 cut(s)	191
TaqI	TCGA	1 cut(s)	80
TasI	AATT	1 cut(s)	148
Tru1I	TTAA	3 cut(s)	42, 147, 156
Tru9I	TTAA	3 cut(s)	42, 147, 156

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