Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0002166

Physical Location & Seq

Genomic Coordinates Reverse (-)

20045911 .. 20046306

Gene Structure 396 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG221300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 312 bp

ATGCAGGCTTTCGTGAAAACCCTAACGGGGAAGACAATCACTCTCGAGGTCGAGAGCAGCGACACCATCGACAATGTCAAGGCCAAGATCCAAGACAAGGAAGGCATCCTCCCGGACCAGCAGCGTTTGATTTTAGCCGGAAAGCAGCTTGAAGACAGCCGCACCTTGGCCGAATTTAACATCCAGAAAGAGTCGACTCTTCATCTGGTGTTGAGGCTCCATGGAGATATTAACCATATTATCGAGCCTTCTTTGATGGCCTTGGCTCGCAAGTACAATAAGGAGAAGATGATTTGCAAAGCCAGAAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03010 ko03320 map03010 map03320

Pfam Domains

Protein Families

Ribosomal_L40e ubiquitin

Protein Analysis

103

Amino Acids

11.71

Weight (kDa)

9.1

Isoelectric Point (pI)

48.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rad60-SLD	PF11976	2 - 71	3.1e-12	Ubiquitin-2 like Rad60 SUMO-like
ubiquitin	PF00240	4 - 73	1.7e-28	Ubiquitin family
Ribosomal_L40e	PF01020	81 - 100	5.8e-07	Ribosomal L40e family

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: OG0002166)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G36170 AT3G52590
fragaria_vesca	FvH4_6g19302 FvH4_6g19302 FvH4_7g32551
malus_domestica	MD01G1226400.v1.1 MD07G1296800.v1.1 MD12G1028600.v1.1 MD14G1028800.v1.1
prunus_persica	Prupe.2G316400_v2.0.a1 Prupe.7G102800_v2.0.a1
pyrus_communis	pycom01g23500 pycom07g26950 pycom12g02740 pycom14g02690
rosa_chinensis	RchiOBHm_Chr1g0336321 RchiOBHm_Chr1g0382401 RchiOBHm_Chr2g0129851 RchiOBHm_Chr2g0148571 RchiOBHm_Chr2g0162391 RchiOBHm_Chr3g0474431 RchiOBHm_Chr3g0474471 RchiOBHm_Chr3g0485451 RchiOBHm_Chr4g0402971
rosa_multiflora	Rmu_sc0000048.1_g000015 Rmu_sc0009916.1_g000009
rosa_roxburghii	Rroxscaffold_1G00002380 Rroxscaffold_4G00278130
rosa_rugosa	Rorug01G0434100 Rorug03G0140900
rosa_samantha	Rh1AG458800 Rh1BG415100 Rh1CG429200 Rh1DG447200 Rh2BG576000 Rh3AG191600 Rh3AG267800 Rh3BG221100 Rh3BG221300 Rh4CG124000
rosa_wichuraiana	Rw1G041220 Rw3G017490 Rw6G010860

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	194
AciI	CCGC	1 cut(s)	160
AclWI	GGATC	1 cut(s)	82
AcoI	YGGCCR	1 cut(s)	168
AcsI	RAATTY	1 cut(s)	173
AfaI	GTAC	1 cut(s)	275
AfiI	CCNNNNNNNGG	3 cut(s)	27, 97, 166
AgsI	TTSAA	1 cut(s)	152
AluBI	AGCT	1 cut(s)	148
AluI	AGCT	1 cut(s)	148
AlwI	GGATC	1 cut(s)	82
Ama87I	CYCGRG	1 cut(s)	44
AoxI	GGCC	3 cut(s)	81, 168, 258
ApeKI	GCWGC	3 cut(s)	57, 121, 145
ApoI	RAATTY	1 cut(s)	173
AspS9I	GGNCC	1 cut(s)	115
AsuC2I	CCSGG	1 cut(s)	113
AvaI	CYCGRG	1 cut(s)	44
AvaII	GGWCC	1 cut(s)	115
BbsI	GAAGAC	2 cut(s)	38, 159
BbvI	GCAGC	3 cut(s)	69, 133, 157
BccI	CCATC	2 cut(s)	74, 250
BcnI	CCSGG	1 cut(s)	113
BisI	GCNGC	4 cut(s)	58, 122, 146, 160
BlsI	GCNGC	4 cut(s)	59, 123, 147, 161
Bme1390I	CCNGG	1 cut(s)	113
Bme18I	GGWCC	1 cut(s)	115
BmeT110I	CYCGRG	1 cut(s)	44
BmgT120I	GGNCC	1 cut(s)	115
BmiI	GGNNCC	1 cut(s)	218
BmrFI	CCNGG	1 cut(s)	113
BmsI	GCATC	1 cut(s)	114
BpiI	GAAGAC	2 cut(s)	38, 159
BpuMI	CCSGG	1 cut(s)	113
BsaJI	CCNNGG	3 cut(s)	165, 220, 261
Bsc4I	CCNNNNNNNGG	3 cut(s)	27, 97, 166
BseDI	CCNNGG	3 cut(s)	165, 220, 261
BseGI	GGATG	2 cut(s)	105, 180
BseLI	CCNNNNNNNGG	3 cut(s)	27, 97, 166
BseXI	GCAGC	3 cut(s)	69, 133, 157
BshFI	GGCC	3 cut(s)	83, 170, 260
BsiHKCI	CYCGRG	1 cut(s)	44
BsiSI	CCGG	2 cut(s)	113, 138
BslI	CCNNNNNNNGG	3 cut(s)	27, 97, 166
BsnI	GGCC	3 cut(s)	83, 170, 260
BsoBI	CYCGRG	1 cut(s)	44
Bsp143I	GATC	1 cut(s)	87
Bsp19I	CCATGG	1 cut(s)	220
BspACI	CCGC	1 cut(s)	160
BspANI	GGCC	3 cut(s)	83, 170, 260
BspLI	GGNNCC	1 cut(s)	218
BspPI	GGATC	1 cut(s)	82
BssECI	CCNNGG	3 cut(s)	165, 220, 261
BssMI	GATC	1 cut(s)	87
BssT1I	CCWWGG	3 cut(s)	165, 220, 261
Bst6I	CTCTTC	1 cut(s)	204
BstC8I	GCNNGC	2 cut(s)	6, 268
BstDSI	CCRYGG	1 cut(s)	220
BstF5I	GGATG	2 cut(s)	105, 180
BstKTI	GATC	1 cut(s)	90
BstMBI	GATC	1 cut(s)	87
BstSCI	CCNGG	1 cut(s)	111
BstV1I	GCAGC	3 cut(s)	69, 133, 157
BstV2I	GAAGAC	2 cut(s)	38, 159
BstX2I	RGATCY	1 cut(s)	87
BstYI	RGATCY	1 cut(s)	87
BsuRI	GGCC	3 cut(s)	83, 170, 260
BtgI	CCRYGG	1 cut(s)	220
BtsCI	GGATG	2 cut(s)	105, 180
Cac8I	GCNNGC	2 cut(s)	6, 268
Cfr13I	GGNCC	1 cut(s)	115
Csp6I	GTAC	1 cut(s)	274
CviAII	CATG	1 cut(s)	221
CviQI	GTAC	1 cut(s)	274
DpnI	GATC	1 cut(s)	89
DpnII	GATC	1 cut(s)	87
EaeI	YGGCCR	1 cut(s)	168
Eam1104I	CTCTTC	1 cut(s)	204
EarI	CTCTTC	1 cut(s)	204
Eco130I	CCWWGG	3 cut(s)	165, 220, 261
Eco47I	GGWCC	1 cut(s)	115
Eco88I	CYCGRG	1 cut(s)	44
EcoT14I	CCWWGG	3 cut(s)	165, 220, 261
ErhI	CCWWGG	3 cut(s)	165, 220, 261
FaeI	CATG	1 cut(s)	224
FaiI	YATR	2 cut(s)	222, 237
FatI	CATG	1 cut(s)	220
FblI	GTMKAC	1 cut(s)	194
Fnu4HI	GCNGC	4 cut(s)	58, 122, 146, 160
FokI	GGATG	2 cut(s)	92, 167
Fsp4HI	GCNGC	4 cut(s)	58, 122, 146, 160
GluI	GCNGC	4 cut(s)	58, 122, 146, 160
HaeIII	GGCC	3 cut(s)	83, 170, 260
HapII	CCGG	2 cut(s)	113, 138
Hin1II	CATG	1 cut(s)	224
HincII	GTYRAC	1 cut(s)	195
HindII	GTYRAC	1 cut(s)	195
HinfI	GANTC	2 cut(s)	191, 196
HpaII	CCGG	2 cut(s)	113, 138
Hpy166II	GTNNAC	1 cut(s)	195
Hpy188III	TCNNGA	4 cut(s)	13, 44, 52, 184
Hpy8I	GTNNAC	1 cut(s)	195
HpyAV	CCTTC	2 cut(s)	95, 258
HpyCH4V	TGCA	2 cut(s)	4, 297
Hsp92II	CATG	1 cut(s)	224
Kzo9I	GATC	1 cut(s)	87
LmnI	GCTCC	1 cut(s)	222
LpnPI	CCDG	5 cut(s)	126, 131, 151, 191, 197
Lsp1109I	GCAGC	3 cut(s)	69, 133, 157
LweI	GCATC	1 cut(s)	114
MalI	GATC	1 cut(s)	89
MboI	GATC	1 cut(s)	87
MboII	GAAGA	4 cut(s)	43, 164, 191, 298
MflI	RGATCY	1 cut(s)	87
MluCI	AATT	1 cut(s)	173
MlyI	GAGTC	2 cut(s)	190, 200
MnlI	CCTC	3 cut(s)	40, 119, 207
MseI	TTAA	2 cut(s)	177, 231
MspI	CCGG	2 cut(s)	113, 138
MspR9I	CCNGG	1 cut(s)	113
NciI	CCSGG	1 cut(s)	113
NcoI	CCATGG	1 cut(s)	220
NdeII	GATC	1 cut(s)	87
NlaIII	CATG	1 cut(s)	224
NlaIV	GGNNCC	1 cut(s)	218
PaeR7I	CTCGAG	1 cut(s)	44
PcsI	WCGNNNNNNNCGW	1 cut(s)	57
PflFI	GACNNNGTC	1 cut(s)	74
PfoI	TCCNGGA	1 cut(s)	111
PkrI	GCNGC	4 cut(s)	59, 123, 147, 161
PleI	GAGTC	2 cut(s)	190, 199
PpsI	GAGTC	2 cut(s)	190, 199
PspN4I	GGNNCC	1 cut(s)	218
PspPI	GGNCC	1 cut(s)	115
PsuI	RGATCY	1 cut(s)	87
PsyI	GACNNNGTC	1 cut(s)	74
RsaI	GTAC	1 cut(s)	275
RsaNI	GTAC	1 cut(s)	274
SalI	GTCGAC	1 cut(s)	193
SaqAI	TTAA	2 cut(s)	177, 231
SatI	GCNGC	4 cut(s)	58, 122, 146, 160
Sau3AI	GATC	1 cut(s)	87
Sau96I	GGNCC	1 cut(s)	115
SchI	GAGTC	2 cut(s)	190, 200
ScrFI	CCNGG	1 cut(s)	113
SetI	ASST	3 cut(s)	51, 150, 167
SfaNI	GCATC	1 cut(s)	114
Sfr274I	CTCGAG	1 cut(s)	44
SinI	GGWCC	1 cut(s)	115
SlaI	CTCGAG	1 cut(s)	44
SmlI	CTYRAG	1 cut(s)	44
SmoI	CTYRAG	1 cut(s)	44
Sse9I	AATT	1 cut(s)	173
SsiI	CCGC	1 cut(s)	160
StyD4I	CCNGG	1 cut(s)	111
StyI	CCWWGG	3 cut(s)	165, 220, 261
TaqI	TCGA	5 cut(s)	45, 51, 69, 194, 243
TasI	AATT	1 cut(s)	173
TatI	WGTACW	1 cut(s)	273
TauI	GCSGC	1 cut(s)	162
Tru1I	TTAA	2 cut(s)	177, 231
Tru9I	TTAA	2 cut(s)	177, 231
TseI	GCWGC	3 cut(s)	57, 121, 145
TspDTI	ATGAA	1 cut(s)	191
Tth111I	GACNNNGTC	1 cut(s)	74
VpaK11BI	GGWCC	1 cut(s)	115
XapI	RAATTY	1 cut(s)	173
XhoI	CTCGAG	1 cut(s)	44
XmiI	GTMKAC	1 cut(s)	194

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