Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0002166

Physical Location & Seq

Genomic Coordinates Reverse (-)

18392465 .. 18394573

Gene Structure 2109 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG191600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 387 bp

ATGCAGATTTTCGTGAAAACCCTAACGGGGAAGACCATCACTCTCGAGGTCGAGAGCAGCGACACCATCGACAATGTCAAGGCCAAGATCCAAGACAAGGAAGGCATTCCTCCGGACCAGCAGCGTTTGATTTTCGCCGGAAAGCAGCTCGAAGACGGCCGCACCTTGGCCGACTACAACATCCAGAAAGAGTCGACTCTTCATCTGGTGCTGAGGCTCCGTGGAGGTATCATCGAGCCTTCCTTGATGGCCTTGGCTCGCAAGTACAATCAGGAGAAGATGATTTGCAGAAAATGTTATGCTCGTCTACACCCAAGGGCTGTCAACTGTAGGAAGAAGAAGTGTGGCCACAGCAATCAGTTGAGGCCAAAGAAGAAGATCAAGTAA

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

128

Amino Acids

14.69

Weight (kDa)

9.94

Isoelectric Point (pI)

33.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rad60-SLD	PF11976	1 - 71	8.9e-18	Ubiquitin-2 like Rad60 SUMO-like
ubiquitin	PF00240	3 - 74	1.1e-32	Ubiquitin family
Ribosomal_L40e	PF01020	78 - 127	3.7e-31	Ribosomal L40e family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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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	2 cut(s)	194, 307
AccIII	TCCGGA	1 cut(s)	112
AciI	CCGC	1 cut(s)	160
AclWI	GGATC	1 cut(s)	82
AcoI	YGGCCR	3 cut(s)	157, 168, 346
AfaI	GTAC	1 cut(s)	266
AfiI	CCNNNNNNNGG	3 cut(s)	27, 97, 166
AluBI	AGCT	1 cut(s)	148
AluI	AGCT	1 cut(s)	148
AlwI	GGATC	1 cut(s)	82
Ama87I	CYCGRG	1 cut(s)	44
Aor13HI	TCCGGA	1 cut(s)	112
AoxI	GGCC	6 cut(s)	81, 157, 168, 249, 346, 365
ApeKI	GCWGC	3 cut(s)	57, 121, 145
Asp700I	GAANNNNTTC	1 cut(s)	105
AspS9I	GGNCC	1 cut(s)	115
AvaI	CYCGRG	1 cut(s)	44
AvaII	GGWCC	1 cut(s)	115
BalI	TGGCCA	1 cut(s)	348
BbsI	GAAGAC	2 cut(s)	38, 159
BbvCI	CCTCAGC	1 cut(s)	212
BbvI	GCAGC	3 cut(s)	69, 133, 157
BccI	CCATC	3 cut(s)	44, 74, 241
BceAI	ACGGC	1 cut(s)	172
BfmI	CTRYAG	1 cut(s)	328
BisI	GCNGC	4 cut(s)	58, 122, 146, 160
BlsI	GCNGC	4 cut(s)	59, 123, 147, 161
Bme18I	GGWCC	1 cut(s)	115
BmeT110I	CYCGRG	1 cut(s)	44
BmgT120I	GGNCC	1 cut(s)	115
BmiI	GGNNCC	1 cut(s)	218
BpiI	GAAGAC	2 cut(s)	38, 159
Bpu10I	CCTNAGC	1 cut(s)	212
BsaJI	CCNNGG	4 cut(s)	165, 220, 252, 314
BsaWI	WCCGGW	1 cut(s)	112
Bsc4I	CCNNNNNNNGG	3 cut(s)	27, 97, 166
BseAI	TCCGGA	1 cut(s)	112
BseDI	CCNNGG	4 cut(s)	165, 220, 252, 314
BseGI	GGATG	1 cut(s)	180
BseLI	CCNNNNNNNGG	3 cut(s)	27, 97, 166
BseMII	CTCAG	1 cut(s)	203
BseX3I	CGGCCG	1 cut(s)	157
BseXI	GCAGC	3 cut(s)	69, 133, 157
Bsh1285I	CGRYCG	1 cut(s)	160
BshFI	GGCC	6 cut(s)	83, 159, 170, 251, 348, 367
BsiEI	CGRYCG	1 cut(s)	160
BsiHKCI	CYCGRG	1 cut(s)	44
BsiSI	CCGG	2 cut(s)	113, 138
BslI	CCNNNNNNNGG	3 cut(s)	27, 97, 166
BsmI	GAATGC	1 cut(s)	105
BsnI	GGCC	6 cut(s)	83, 159, 170, 251, 348, 367
BsoBI	CYCGRG	1 cut(s)	44
Bsp13I	TCCGGA	1 cut(s)	112
Bsp143I	GATC	2 cut(s)	87, 378
BspACI	CCGC	1 cut(s)	160
BspANI	GGCC	6 cut(s)	83, 159, 170, 251, 348, 367
BspCNI	CTCAG	1 cut(s)	204
BspEI	TCCGGA	1 cut(s)	112
BspLI	GGNNCC	1 cut(s)	218
BspPI	GGATC	1 cut(s)	82
BssECI	CCNNGG	4 cut(s)	165, 220, 252, 314
BssMI	GATC	2 cut(s)	87, 378
BssT1I	CCWWGG	3 cut(s)	165, 252, 314
Bst4CI	ACNGT	1 cut(s)	329
Bst6I	CTCTTC	1 cut(s)	204
BstC8I	GCNNGC	1 cut(s)	259
BstDEI	CTNAG	1 cut(s)	212
BstDSI	CCRYGG	1 cut(s)	220
BstF5I	GGATG	1 cut(s)	180
BstKTI	GATC	2 cut(s)	90, 381
BstMBI	GATC	2 cut(s)	87, 378
BstMCI	CGRYCG	1 cut(s)	160
BstSFI	CTRYAG	1 cut(s)	328
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
BstZI	CGGCCG	1 cut(s)	157
BsuRI	GGCC	6 cut(s)	83, 159, 170, 251, 348, 367
BtgI	CCRYGG	1 cut(s)	220
BtsCI	GGATG	1 cut(s)	180
Cac8I	GCNNGC	1 cut(s)	259
Cfr13I	GGNCC	1 cut(s)	115
Csp6I	GTAC	1 cut(s)	265
CviQI	GTAC	1 cut(s)	265
DdeI	CTNAG	1 cut(s)	212
DpnI	GATC	2 cut(s)	89, 380
DpnII	GATC	2 cut(s)	87, 378
EaeI	YGGCCR	3 cut(s)	157, 168, 346
EagI	CGGCCG	1 cut(s)	157
Eam1104I	CTCTTC	1 cut(s)	204
EarI	CTCTTC	1 cut(s)	204
EclXI	CGGCCG	1 cut(s)	157
Eco130I	CCWWGG	3 cut(s)	165, 252, 314
Eco47I	GGWCC	1 cut(s)	115
Eco52I	CGGCCG	1 cut(s)	157
Eco88I	CYCGRG	1 cut(s)	44
EcoT14I	CCWWGG	3 cut(s)	165, 252, 314
ErhI	CCWWGG	3 cut(s)	165, 252, 314
FaiI	YATR	1 cut(s)	300
FblI	GTMKAC	2 cut(s)	194, 307
Fnu4HI	GCNGC	4 cut(s)	58, 122, 146, 160
FokI	GGATG	1 cut(s)	167
Fsp4HI	GCNGC	4 cut(s)	58, 122, 146, 160
GluI	GCNGC	4 cut(s)	58, 122, 146, 160
HaeIII	GGCC	6 cut(s)	83, 159, 170, 251, 348, 367
HapII	CCGG	2 cut(s)	113, 138
HincII	GTYRAC	2 cut(s)	195, 325
HindII	GTYRAC	2 cut(s)	195, 325
HinfI	GANTC	2 cut(s)	191, 196
HpaII	CCGG	2 cut(s)	113, 138
Hpy166II	GTNNAC	3 cut(s)	195, 308, 325
Hpy188III	TCNNGA	6 cut(s)	13, 44, 52, 113, 184, 272
Hpy8I	GTNNAC	3 cut(s)	195, 308, 325
HpyAV	CCTTC	2 cut(s)	95, 249
HpyCH4III	ACNGT	1 cut(s)	329
HpyCH4V	TGCA	2 cut(s)	4, 288
HpyF3I	CTNAG	1 cut(s)	212
Kpn2I	TCCGGA	1 cut(s)	112
Kzo9I	GATC	2 cut(s)	87, 378
LmnI	GCTCC	1 cut(s)	222
LpnPI	CCDG	6 cut(s)	126, 131, 151, 191, 197, 257
Lsp1109I	GCAGC	3 cut(s)	69, 133, 157
MalI	GATC	2 cut(s)	89, 380
MboI	GATC	2 cut(s)	87, 378
MboII	GAAGA	7 cut(s)	43, 164, 191, 289, 346, 349, 385
MflI	RGATCY	1 cut(s)	87
MlsI	TGGCCA	1 cut(s)	348
MluNI	TGGCCA	1 cut(s)	348
MlyI	GAGTC	2 cut(s)	190, 200
MnlI	CCTC	5 cut(s)	40, 120, 207, 218, 357
Mox20I	TGGCCA	1 cut(s)	348
MroI	TCCGGA	1 cut(s)	112
MroXI	GAANNNNTTC	1 cut(s)	105
MscI	TGGCCA	1 cut(s)	348
Msp20I	TGGCCA	1 cut(s)	348
MspI	CCGG	2 cut(s)	113, 138
Mva1269I	GAATGC	1 cut(s)	105
NdeII	GATC	2 cut(s)	87, 378
NlaIV	GGNNCC	1 cut(s)	218
PaeR7I	CTCGAG	1 cut(s)	44
PcsI	WCGNNNNNNNCGW	1 cut(s)	57
PctI	GAATGC	1 cut(s)	105
PdmI	GAANNNNTTC	1 cut(s)	105
PflFI	GACNNNGTC	1 cut(s)	74
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)	266
RsaNI	GTAC	1 cut(s)	265
SalI	GTCGAC	1 cut(s)	193
SatI	GCNGC	4 cut(s)	58, 122, 146, 160
Sau3AI	GATC	2 cut(s)	87, 378
Sau96I	GGNCC	1 cut(s)	115
SchI	GAGTC	2 cut(s)	190, 200
SetI	ASST	4 cut(s)	51, 150, 167, 229
SfcI	CTRYAG	1 cut(s)	328
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
SsiI	CCGC	1 cut(s)	160
StyI	CCWWGG	3 cut(s)	165, 252, 314
TaaI	ACNGT	1 cut(s)	329
TaqI	TCGA	6 cut(s)	45, 51, 69, 150, 194, 234
TatI	WGTACW	1 cut(s)	264
TauI	GCSGC	1 cut(s)	162
TseI	GCWGC	3 cut(s)	57, 121, 145
TspDTI	ATGAA	1 cut(s)	191
TspGWI	ACGGA	1 cut(s)	209
Tth111I	GACNNNGTC	1 cut(s)	74
VpaK11BI	GGWCC	1 cut(s)	115
XhoI	CTCGAG	1 cut(s)	44
XmiI	GTMKAC	2 cut(s)	194, 307
XmnI	GAANNNNTTC	1 cut(s)	105

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