Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0003945

Physical Location & Seq

Genomic Coordinates Reverse (-)

58778828 .. 58779908

Gene Structure 1081 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG396900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 312 bp

ATGTGGTTCGTTAACGGCCAAGAGATACTAGTTCGGAGGAACAAAGTCGGTGTACCACGGGCCAGCTGGCGGACCAAGGCAGCAGACGACCTGACCCACTGCGAGTTCGCCGCCGACTTGGAGAAAATATACAGAATATTACGCAAATTCCACTCCCGGGTCCCCAAACTAGAGCTCACTCTACATCAATCCGGCGTCGTTTTGCACTCCGACTTAACCGAGCGAGTGCTGTCTCGGTGCTCGCTCTATATTGTGGGGTATAATAATTTGCTTGGTGGGTATGCTCAGGCTGAGAAGATGGTTGATGCGTAG

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

103

Amino Acids

11.81

Weight (kDa)

9.3

Isoelectric Point (pI)

35.05

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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	2 cut(s)	70, 111
AcoI	YGGCCR	1 cut(s)	16
AcsI	RAATTY	1 cut(s)	146
AcyI	GRCGYC	1 cut(s)	195
AfaI	GTAC	1 cut(s)	54
AfiI	CCNNNNNNNGG	2 cut(s)	69, 157
AhlI	ACTAGT	1 cut(s)	28
AluBI	AGCT	2 cut(s)	66, 175
AluI	AGCT	2 cut(s)	66, 175
Alw21I	GWGCWC	2 cut(s)	177, 242
Alw26I	GTCTC	1 cut(s)	237
Ama87I	CYCGRG	1 cut(s)	156
AoxI	GGCC	2 cut(s)	16, 60
ApeKI	GCWGC	1 cut(s)	80
ApoI	RAATTY	1 cut(s)	146
AspS9I	GGNCC	3 cut(s)	60, 72, 160
AsuC2I	CCSGG	2 cut(s)	157, 158
AvaI	CYCGRG	1 cut(s)	156
AvaII	GGWCC	2 cut(s)	72, 160
BanII	GRGCYC	1 cut(s)	177
Bbv12I	GWGCWC	2 cut(s)	177, 242
BbvI	GCAGC	1 cut(s)	92
BccI	CCATC	1 cut(s)	292
BceAI	ACGGC	1 cut(s)	31
BcnI	CCSGG	2 cut(s)	157, 158
BcoDI	GTCTC	1 cut(s)	237
BcuI	ACTAGT	1 cut(s)	28
BfaI	CTAG	2 cut(s)	29, 170
BisI	GCNGC	2 cut(s)	81, 111
BlsI	GCNGC	2 cut(s)	82, 112
Bme1390I	CCNGG	2 cut(s)	157, 158
Bme18I	GGWCC	2 cut(s)	72, 160
BmeT110I	CYCGRG	1 cut(s)	156
BmgT120I	GGNCC	3 cut(s)	60, 72, 160
BmiI	GGNNCC	2 cut(s)	161, 162
BmrFI	CCNGG	2 cut(s)	157, 158
BmsI	GCATC	1 cut(s)	295
Bpu10I	CCTNAGC	1 cut(s)	285
BpuMI	CCSGG	2 cut(s)	157, 158
BsaHI	GRCGYC	1 cut(s)	195
BsaJI	CCNNGG	3 cut(s)	56, 75, 156
Bsc4I	CCNNNNNNNGG	2 cut(s)	69, 157
BseDI	CCNNGG	3 cut(s)	56, 75, 156
BseLI	CCNNNNNNNGG	2 cut(s)	69, 157
BseMII	CTCAG	2 cut(s)	282, 299
BseXI	GCAGC	1 cut(s)	92
BshFI	GGCC	2 cut(s)	18, 62
BsiHKAI	GWGCWC	2 cut(s)	177, 242
BsiHKCI	CYCGRG	1 cut(s)	156
BsiSI	CCGG	2 cut(s)	157, 192
BslFI	GGGAC	1 cut(s)	146
BslI	CCNNNNNNNGG	2 cut(s)	69, 157
BsmAI	GTCTC	1 cut(s)	237
BsmFI	GGGAC	1 cut(s)	146
BsnI	GGCC	2 cut(s)	18, 62
BsoBI	CYCGRG	1 cut(s)	156
Bsp1286I	GDGCHC	2 cut(s)	177, 242
BspACI	CCGC	2 cut(s)	70, 111
BspANI	GGCC	2 cut(s)	18, 62
BspCNI	CTCAG	2 cut(s)	283, 298
BspLI	GGNNCC	2 cut(s)	161, 162
BssECI	CCNNGG	3 cut(s)	56, 75, 156
BssNI	GRCGYC	1 cut(s)	195
BssT1I	CCWWGG	1 cut(s)	75
BstACI	GRCGYC	1 cut(s)	195
BstC8I	GCNNGC	3 cut(s)	64, 68, 242
BstDEI	CTNAG	2 cut(s)	285, 291
BstDSI	CCRYGG	1 cut(s)	56
BstMAI	GTCTC	1 cut(s)	237
BstSCI	CCNGG	2 cut(s)	155, 156
BstV1I	GCAGC	1 cut(s)	92
BsuRI	GGCC	2 cut(s)	18, 62
BtgI	CCRYGG	1 cut(s)	56
BtsI	GCAGTG	1 cut(s)	97
BtsIMutI	CAGTG	1 cut(s)	97
Cac8I	GCNNGC	3 cut(s)	64, 68, 242
Cfr13I	GGNCC	3 cut(s)	60, 72, 160
Cfr9I	CCCGGG	1 cut(s)	156
CseI	GACGC	1 cut(s)	184
Csp6I	GTAC	1 cut(s)	53
CviJI	RGCY	5 cut(s)	18, 62, 66, 175, 290
CviKI_1	RGCY	5 cut(s)	18, 62, 66, 175, 290
CviQI	GTAC	1 cut(s)	53
DdeI	CTNAG	2 cut(s)	285, 291
EaeI	YGGCCR	1 cut(s)	16
EciI	GGCGGA	1 cut(s)	85
Ecl136II	GAGCTC	1 cut(s)	175
Eco130I	CCWWGG	1 cut(s)	75
Eco24I	GRGCYC	1 cut(s)	177
Eco47I	GGWCC	2 cut(s)	72, 160
Eco53kI	GAGCTC	1 cut(s)	175
Eco88I	CYCGRG	1 cut(s)	156
EcoICRI	GAGCTC	1 cut(s)	175
EcoO109I	RGGNCCY	1 cut(s)	160
EcoT14I	CCWWGG	1 cut(s)	75
EcoT38I	GRGCYC	1 cut(s)	177
ErhI	CCWWGG	1 cut(s)	75
FaiI	YATR	4 cut(s)	130, 249, 261, 282
FaqI	GGGAC	1 cut(s)	146
Fnu4HI	GCNGC	2 cut(s)	81, 111
FriOI	GRGCYC	1 cut(s)	177
Fsp4HI	GCNGC	2 cut(s)	81, 111
FspBI	CTAG	2 cut(s)	29, 170
GluI	GCNGC	2 cut(s)	81, 111
HaeIII	GGCC	2 cut(s)	18, 62
HapII	CCGG	2 cut(s)	157, 192
HgaI	GACGC	1 cut(s)	184
Hin1I	GRCGYC	1 cut(s)	195
HincII	GTYRAC	1 cut(s)	13
HindII	GTYRAC	1 cut(s)	13
HpaI	GTTAAC	1 cut(s)	13
HpaII	CCGG	2 cut(s)	157, 192
Hpy166II	GTNNAC	2 cut(s)	13, 53
Hpy188I	TCNGA	2 cut(s)	36, 211
Hpy8I	GTNNAC	2 cut(s)	13, 53
Hpy99I	CGWCG	1 cut(s)	200
HpyCH4V	TGCA	1 cut(s)	205
HpyF3I	CTNAG	2 cut(s)	285, 291
Hsp92I	GRCGYC	1 cut(s)	195
KflI	GGGWCCC	1 cut(s)	160
KspAI	GTTAAC	1 cut(s)	13
LpnPI	CCDG	6 cut(s)	52, 76, 104, 170, 205, 272
Lsp1109I	GCAGC	1 cut(s)	92
LweI	GCATC	1 cut(s)	295
MaeI	CTAG	2 cut(s)	29, 170
MboII	GAAGA	1 cut(s)	307
MhlI	GDGCHC	2 cut(s)	177, 242
MluCI	AATT	2 cut(s)	146, 265
MmeI	TCCRAC	1 cut(s)	234
MnlI	CCTC	1 cut(s)	30
MseI	TTAA	2 cut(s)	12, 215
MspA1I	CMGCKG	1 cut(s)	66
MspI	CCGG	2 cut(s)	157, 192
MspR9I	CCNGG	2 cut(s)	157, 158
NciI	CCSGG	2 cut(s)	157, 158
NlaIV	GGNNCC	2 cut(s)	161, 162
PkrI	GCNGC	2 cut(s)	82, 112
PpuMI	RGGWCCY	1 cut(s)	160
Psp124BI	GAGCTC	1 cut(s)	177
Psp5II	RGGWCCY	1 cut(s)	160
PspN4I	GGNNCC	2 cut(s)	161, 162
PspPI	GGNCC	3 cut(s)	60, 72, 160
PspPPI	RGGWCCY	1 cut(s)	160
PvuII	CAGCTG	1 cut(s)	66
RsaI	GTAC	1 cut(s)	54
RsaNI	GTAC	1 cut(s)	53
SacI	GAGCTC	1 cut(s)	177
SaqAI	TTAA	2 cut(s)	12, 215
SatI	GCNGC	2 cut(s)	81, 111
Sau96I	GGNCC	3 cut(s)	60, 72, 160
ScrFI	CCNGG	2 cut(s)	157, 158
SduI	GDGCHC	2 cut(s)	177, 242
SetI	ASST	3 cut(s)	68, 93, 177
SfaNI	GCATC	1 cut(s)	295
SinI	GGWCC	2 cut(s)	72, 160
SmaI	CCCGGG	1 cut(s)	158
SpeI	ACTAGT	1 cut(s)	28
Sse9I	AATT	2 cut(s)	146, 265
SsiI	CCGC	2 cut(s)	70, 111
SspI	AATATT	1 cut(s)	138
SspMI	CTAG	2 cut(s)	29, 170
SstI	GAGCTC	1 cut(s)	177
StyD4I	CCNGG	2 cut(s)	155, 156
StyI	CCWWGG	1 cut(s)	75
TasI	AATT	2 cut(s)	146, 265
TauI	GCSGC	1 cut(s)	113
Tru1I	TTAA	2 cut(s)	12, 215
Tru9I	TTAA	2 cut(s)	12, 215
TscAI	CASTG	1 cut(s)	104
TseI	GCWGC	1 cut(s)	80
TspMI	CCCGGG	1 cut(s)	156
TspRI	CASTG	1 cut(s)	104
VpaK11BI	GGWCC	2 cut(s)	72, 160
XapI	RAATTY	1 cut(s)	146
XcmI	CCANNNNNNNNNTGG	1 cut(s)	63
XmaI	CCCGGG	1 cut(s)	156
XspI	CTAG	2 cut(s)	29, 170

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