Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0002166

Physical Location & Seq

Genomic Coordinates Reverse (-)

30461989 .. 30462300

Gene Structure 312 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG267800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 312 bp

ATGCAGATCTTCGTGAAAACCCTAACGGGGAAGACGATCACCCTGGAGGTGGAATCGTCGGACACCATCGACAATGTGAAGGCCAAGATTCAAGACAATGAGGGCATCTCACCGGACCAGCAAAGGCTCATCTTCGCCGGAAAGCAGCTCGAGGATGGCCGAACCCTAGCCGACTACAACATCCAGAAGGAGTCTACTCTCCACCTGGTGCTTCATCTCCGTGGCGGAGCCAAGAAGCGTAAGAAGAAGACCTACACCAAGCCCAAGAAGATCAAGCACAAGCACAAGAAGGTCAAGCTAGCCGTCCTCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003735 GO:0005198 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005794 GO:0005829 GO:0005840 GO:0005886 GO:0005911 GO:0009506 GO:0012505 GO:0015935 GO:0016020 GO:0022626 GO:0022627 GO:0030054 GO:0032991 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044391 GO:0044422 GO:0044424 GO:0044444 GO:0044445 GO:0044446 GO:0044464 GO:0055044 GO:0071944 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Ribosomal_S27 ubiquitin

Protein Analysis

103

Amino Acids

11.72

Weight (kDa)

10.04

Isoelectric Point (pI)

27.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rad60-SLD	PF11976	1 - 71	3e-17	Ubiquitin-2 like Rad60 SUMO-like
ubiquitin	PF00240	3 - 74	2.6e-31	Ubiquitin 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)

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Publication-ready

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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)	225
AcoI	YGGCCR	1 cut(s)	157
AdeI	CACNNNGTG	1 cut(s)	208
AfiI	CCNNNNNNNGG	2 cut(s)	27, 49
AgsI	TTSAA	1 cut(s)	92
AjnI	CCWGG	2 cut(s)	42, 204
AluBI	AGCT	2 cut(s)	148, 298
AluI	AGCT	2 cut(s)	148, 298
Ama87I	CYCGRG	1 cut(s)	149
AoxI	GGCC	2 cut(s)	81, 157
ApeKI	GCWGC	1 cut(s)	145
AspS9I	GGNCC	1 cut(s)	115
AsuHPI	GGTGA	2 cut(s)	31, 102
AsuNHI	GCTAGC	1 cut(s)	298
AvaI	CYCGRG	1 cut(s)	149
AvaII	GGWCC	1 cut(s)	115
BarI	GAAGNNNNNNTAC	2 cut(s)	236, 268
BbsI	GAAGAC	2 cut(s)	38, 254
BbvI	GCAGC	1 cut(s)	157
BccI	CCATC	2 cut(s)	74, 149
BceAI	ACGGC	1 cut(s)	287
BciT130I	CCWGG	2 cut(s)	44, 206
BfaI	CTAG	3 cut(s)	167, 299, 310
BglII	AGATCT	1 cut(s)	6
BisI	GCNGC	1 cut(s)	146
BlsI	GCNGC	1 cut(s)	147
Bme1390I	CCNGG	2 cut(s)	44, 206
Bme18I	GGWCC	1 cut(s)	115
BmeT110I	CYCGRG	1 cut(s)	149
BmgT120I	GGNCC	1 cut(s)	115
BmiI	GGNNCC	1 cut(s)	229
BmrFI	CCNGG	2 cut(s)	44, 206
BmsI	GCATC	1 cut(s)	114
BmtI	GCTAGC	1 cut(s)	302
BpiI	GAAGAC	2 cut(s)	38, 254
BplI	GAGNNNNNCTC	2 cut(s)	92, 124
BpmI	CTGGAG	1 cut(s)	65
BsaJI	CCNNGG	2 cut(s)	42, 220
BsaWI	WCCGGW	1 cut(s)	112
Bsc4I	CCNNNNNNNGG	2 cut(s)	27, 49
BseBI	CCWGG	2 cut(s)	44, 206
BseDI	CCNNGG	2 cut(s)	42, 220
BseGI	GGATG	2 cut(s)	160, 180
BseLI	CCNNNNNNNGG	2 cut(s)	27, 49
BseXI	GCAGC	1 cut(s)	157
BshFI	GGCC	2 cut(s)	83, 159
BsiHKCI	CYCGRG	1 cut(s)	149
BsiSI	CCGG	2 cut(s)	113, 138
BslI	CCNNNNNNNGG	2 cut(s)	27, 49
BsnI	GGCC	2 cut(s)	83, 159
BsoBI	CYCGRG	1 cut(s)	149
Bsp143I	GATC	3 cut(s)	6, 36, 270
BspACI	CCGC	1 cut(s)	225
BspANI	GGCC	2 cut(s)	83, 159
BspLI	GGNNCC	1 cut(s)	229
BspOI	GCTAGC	1 cut(s)	302
BssECI	CCNNGG	2 cut(s)	42, 220
BssMI	GATC	3 cut(s)	6, 36, 270
Bst2UI	CCWGG	2 cut(s)	44, 206
BstC8I	GCNNGC	1 cut(s)	300
BstDSI	CCRYGG	1 cut(s)	220
BstF5I	GGATG	2 cut(s)	160, 180
BstKTI	GATC	3 cut(s)	9, 39, 273
BstMBI	GATC	3 cut(s)	6, 36, 270
BstNI	CCWGG	2 cut(s)	44, 206
BstSCI	CCNGG	2 cut(s)	42, 204
BstV1I	GCAGC	1 cut(s)	157
BstV2I	GAAGAC	2 cut(s)	38, 254
BstX2I	RGATCY	1 cut(s)	6
BstYI	RGATCY	1 cut(s)	6
BsuRI	GGCC	2 cut(s)	83, 159
BtgI	CCRYGG	1 cut(s)	220
BtsCI	GGATG	2 cut(s)	160, 180
Cac8I	GCNNGC	1 cut(s)	300
Cfr13I	GGNCC	1 cut(s)	115
CsiI	ACCWGGT	1 cut(s)	204
CviJI	RGCY	9 cut(s)	83, 127, 148, 159, 170, 230, 262, 298, 302
CviKI_1	RGCY	9 cut(s)	83, 127, 148, 159, 170, 230, 262, 298, 302
DpnI	GATC	3 cut(s)	8, 38, 272
DpnII	GATC	3 cut(s)	6, 36, 270
DraIII	CACNNNGTG	1 cut(s)	208
EaeI	YGGCCR	1 cut(s)	157
EciI	GGCGGA	1 cut(s)	240
Eco47I	GGWCC	1 cut(s)	115
Eco88I	CYCGRG	1 cut(s)	149
EcoRII	CCWGG	2 cut(s)	42, 204
FblI	GTMKAC	1 cut(s)	194
Fnu4HI	GCNGC	1 cut(s)	146
FokI	GGATG	2 cut(s)	167, 167
Fsp4HI	GCNGC	1 cut(s)	146
FspBI	CTAG	3 cut(s)	167, 299, 310
GluI	GCNGC	1 cut(s)	146
GsuI	CTGGAG	1 cut(s)	65
HaeIII	GGCC	2 cut(s)	83, 159
HapII	CCGG	2 cut(s)	113, 138
HinfI	GANTC	3 cut(s)	53, 88, 191
HpaII	CCGG	2 cut(s)	113, 138
HphI	GGTGA	2 cut(s)	31, 102
Hpy166II	GTNNAC	1 cut(s)	195
Hpy188I	TCNGA	1 cut(s)	61
Hpy188III	TCNNGA	3 cut(s)	13, 92, 184
Hpy8I	GTNNAC	1 cut(s)	195
Hpy99I	CGWCG	1 cut(s)	61
HpyAV	CCTTC	3 cut(s)	73, 181, 283
HpyCH4V	TGCA	1 cut(s)	4
Kzo9I	GATC	3 cut(s)	6, 36, 270
LmnI	GCTCC	1 cut(s)	227
LpnPI	CCDG	8 cut(s)	29, 56, 126, 131, 151, 191, 197, 218
Lsp1109I	GCAGC	1 cut(s)	157
LweI	GCATC	1 cut(s)	114
MabI	ACCWGGT	1 cut(s)	204
MaeI	CTAG	3 cut(s)	167, 299, 310
MalI	GATC	3 cut(s)	8, 38, 272
MboI	GATC	3 cut(s)	6, 36, 270
MboII	GAAGA	5 cut(s)	43, 124, 256, 259, 280
MflI	RGATCY	1 cut(s)	6
MlyI	GAGTC	1 cut(s)	200
MmeI	TCCRAC	1 cut(s)	39
MnlI	CCTC	3 cut(s)	40, 94, 145
MslI	CAYNNNNRTG	1 cut(s)	219
MspI	CCGG	2 cut(s)	113, 138
MspR9I	CCNGG	2 cut(s)	44, 206
MvaI	CCWGG	2 cut(s)	44, 206
NdeII	GATC	3 cut(s)	6, 36, 270
NheI	GCTAGC	1 cut(s)	298
NlaIV	GGNNCC	1 cut(s)	229
PaeR7I	CTCGAG	1 cut(s)	149
PcsI	WCGNNNNNNNCGW	1 cut(s)	32
PfeI	GAWTC	2 cut(s)	53, 88
PkrI	GCNGC	1 cut(s)	147
PleI	GAGTC	1 cut(s)	199
PpsI	GAGTC	1 cut(s)	199
Psp6I	CCWGG	2 cut(s)	42, 204
PspGI	CCWGG	2 cut(s)	42, 204
PspN4I	GGNNCC	1 cut(s)	229
PspPI	GGNCC	1 cut(s)	115
PspXI	VCTCGAGB	1 cut(s)	149
PsuI	RGATCY	1 cut(s)	6
RseI	CAYNNNNRTG	1 cut(s)	219
SatI	GCNGC	1 cut(s)	146
Sau3AI	GATC	3 cut(s)	6, 36, 270
Sau96I	GGNCC	1 cut(s)	115
SchI	GAGTC	1 cut(s)	200
ScrFI	CCNGG	2 cut(s)	44, 206
SetI	ASST	6 cut(s)	51, 150, 207, 254, 294, 300
SexAI	ACCWGGT	1 cut(s)	204
SfaNI	GCATC	1 cut(s)	114
Sfr274I	CTCGAG	1 cut(s)	149
SinI	GGWCC	1 cut(s)	115
SlaI	CTCGAG	1 cut(s)	149
SmiMI	CAYNNNNRTG	1 cut(s)	219
SmlI	CTYRAG	1 cut(s)	149
SmoI	CTYRAG	1 cut(s)	149
SsiI	CCGC	1 cut(s)	225
SspMI	CTAG	3 cut(s)	167, 299, 310
StyD4I	CCNGG	2 cut(s)	42, 204
TaqI	TCGA	2 cut(s)	69, 150
TfiI	GAWTC	2 cut(s)	53, 88
TseI	GCWGC	1 cut(s)	145
TspDTI	ATGAA	1 cut(s)	203
TspGWI	ACGGA	1 cut(s)	209
VpaK11BI	GGWCC	1 cut(s)	115
XhoI	CTCGAG	1 cut(s)	149
XmiI	GTMKAC	1 cut(s)	194
XspI	CTAG	3 cut(s)	167, 299, 310

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