Rubus idaeus (rubus_idaeus)
Imported from atlas release summary for Rubus idaeus.
1792
Family-Level Assignments
105
Families
6
Pathways
Phylogenetic Position
The current species is positioned within the lineage framework used by this site. Its taxon group is highlighted below.
Species Metadata
Taxon group
Eudicots
Genome status
Genome-level resource available
Site Placement
- This page summarizes pathway coverage, family distributions, and the gene list for the species within the current public dataset.
- If you want to start from the public overview first, open the homepage and then return here for species-level drill-down.
- Family statistics correspond to enzyme families, while pathway statistics correspond to the real category-level pathways.
Pathway Coverage
6
Pathways
Family Distribution
1792
Family-Level Assignments
C4H
6.36%
C3'H/CYP98A
6.14%
BAHD
5.09%
UGT
4.76%
7DLGT
4.56%
UFGT
4.4%
IFS
4.16%
CYP76
3.58%
Other Families
60.95%
More Families (97)
T3O
159
3.54%
4CL
150
3.34%
F3H
130
2.89%
POD
129
2.87%
CAD
102
2.27%
DWF4/CYP90B1
93
2.07%
BR6OX2/CYP85A2
89
1.98%
NMT
83
1.85%
CODM/T6ODM
78
1.73%
H6H
73
1.62%
STR
72
1.6%
F3'H/CYP75B
72
1.6%
CYP90D1
65
1.45%
CAS
62
1.38%
TPS
62
1.38%
GS
60
1.33%
GES
60
1.33%
LAC
58
1.29%
HCT
57
1.27%
CYP71
54
1.2%
SMT1/SMT2/SMT3
47
1.05%
7DLH
45
1.0%
TRI/TRII
45
1.0%
RAS
41
0.91%
CSE
40
0.89%
PMT
38
0.85%
F3'5'H/CYP75A
38
0.85%
SGD
36
0.8%
TAT
36
0.8%
IO
30
0.67%
IFR
30
0.67%
CCR
30
0.67%
T16H
27
0.6%
COMT
27
0.6%
PYKS
25
0.56%
G8O/G8H
25
0.56%
BBE
25
0.56%
SLS
24
0.53%
F5H/CYP84A
22
0.49%
DFR
21
0.47%
NCS
20
0.44%
LAMT
19
0.42%
ANR
19
0.42%
CNMT
16
0.36%
ANS/LDOX
16
0.36%
BR6OX1/CYP85A1
15
0.33%
CYP51G1
15
0.33%
COR
14
0.31%
FNS
14
0.31%
CPD/CYP90A1
14
0.31%
16OMT
13
0.29%
ROT3/CYP90C1
13
0.29%
8HGO
11
0.24%
CCoAOMT
11
0.24%
SQE
9
0.2%
HMGR
9
0.2%
ISY
8
0.18%
MPO
8
0.18%
HPPR
8
0.18%
ODC
7
0.16%
CHS
7
0.16%
SMO1/SMO2
7
0.16%
CYP80B1
6
0.13%
TYDC_DDC
6
0.13%
CYP719
6
0.13%
PAL
6
0.13%
CPR
6
0.13%
FPPS
6
0.13%
CMK/IspE
6
0.13%
SQS/FDFT1
5
0.11%
DET2
5
0.11%
AACT
5
0.11%
GGPPS
5
0.11%
DXS
5
0.11%
FLS
4
0.09%
MVK
4
0.09%
MVD
3
0.07%
HMGS
3
0.07%
HDR/IspH
3
0.07%
XMT_MXMT_DXMT
2
0.04%
CHI
2
0.04%
DWF1
2
0.04%
DWF7
2
0.04%
GPPS
2
0.04%
MCT/IspD
2
0.04%
CYP80F1
1
0.02%
ADC
1
0.02%
TDC
1
0.02%
HYD1
1
0.02%
FK
1
0.02%
DWF5
1
0.02%
CPI1
1
0.02%
HDS/IspG
1
0.02%
IDI
1
0.02%
DXR
1
0.02%
MDS/IspF
1
0.02%
PMK
1
0.02%
Species Pathway Results
The links below show identification results for this species within each pathway, instead of opening the global pathway overview.
| Pathway | Family-Level Assignments | Families | Top family | Results |
|---|---|---|---|---|
| Terpenoid pathway | 514 | 20 | UGT (191) | View species results |
| Alkaloid pathway | 410 | 20 | 7DLGT (109) | View species results |
| Phenylpropanoid pathway | 328 | 12 | POD (111) | View species results |
| Flavonoid pathway | 258 | 11 | UFGT (185) | View species results |
| Rosmarinic acid pathway | 179 | 7 | C4H (72) | View species results |
| Steroid pathway | 103 | 13 | CAS (45) | View species results |
Broad Catalytic Groups
P450/oxygenase and BAHD/acyltransferase are counted separately as broad catalytic groups and are not mixed into the canonical enzyme-family count.
| Catalytic group | Families | Family-level assignments | Included families |
|---|---|---|---|
| P450/oxygenase | 24 | 1723 | 7DLH, BR6OX1/CYP85A1, BR6OX2/CYP85A2, C3'H/CYP98A, C4H, CPD/CYP90A1, CYP51G1, CYP71, CYP719, CYP76, CYP80B1, CYP80F1, CYP90D1, DWF4/CYP90B1, F3'5'H/CYP75A, F3'H/CYP75B, F5H/CYP84A, G8O/G8H, IFS, IO, ROT3/CYP90C1, SLS, T16H, T3O |
| BAHD/acyltransferase | 3 | 327 | BAHD, HCT, RAS |
Identification Result List
Search the public identification results for this species; click pathway or family legends above to narrow within this species.
Current family filter: STR
| Gene | Pathway | Family | Confidence | Status | Best Target |
|---|---|---|---|---|---|
| rubus_idaeus_g30308.t1 | Alkaloid | STR | low | borderline | STR__00001__sp_D3GE74_STR1_MEDTR |
| rubus_idaeus_g30659.t1 | Alkaloid | STR | medium | pass | STR__00003__sp_Q9M1B4_SSL13_ARATH |
| rubus_idaeus_g30674.t1 | Alkaloid | STR | medium | pass | STR__00003__sp_Q9M1B4_SSL13_ARATH |
| rubus_idaeus_g34274.t1 | Alkaloid | STR | medium | pass | STR__00001__sp_D3GE74_STR1_MEDTR |
| rubus_idaeus_g35819.t1 | Alkaloid | STR | low | borderline | STR__00001__sp_D3GE74_STR1_MEDTR |
| rubus_idaeus_g36254.t1 | Alkaloid | STR | low | borderline | STR__00001__sp_D3GE74_STR1_MEDTR |
| rubus_idaeus_g386.t1 | Alkaloid | STR | low | borderline | STR__00001__sp_D3GE74_STR1_MEDTR |
| rubus_idaeus_g5786.t1 | Alkaloid | STR | low | borderline | STR__00001__sp_D3GE74_STR1_MEDTR |
| rubus_idaeus_g5790.t1 | Alkaloid | STR | low | borderline | STR__00001__sp_D3GE74_STR1_MEDTR |
| rubus_idaeus_g5805.t1 | Alkaloid | STR | low | borderline | STR__00001__sp_D3GE74_STR1_MEDTR |
| rubus_idaeus_g6023.t1 | Alkaloid | STR | medium | pass | STR__00003__sp_Q9M1B4_SSL13_ARATH |
| rubus_idaeus_g6219.t1 | Alkaloid | STR | medium | pass | STR__00001__sp_D3GE74_STR1_MEDTR |
| rubus_idaeus_g7074.t1 | Alkaloid | STR | low | borderline | STR__00001__sp_D3GE74_STR1_MEDTR |
| rubus_idaeus_g7665.t1 | Alkaloid | STR | low | borderline | STR__00001__sp_D3GE74_STR1_MEDTR |
| rubus_idaeus_g773.t1 | Alkaloid | STR | medium | pass | STR__00003__sp_Q9M1B4_SSL13_ARATH |
| rubus_idaeus_g8538.t1 | Alkaloid | STR | low | borderline | STR__00001__sp_D3GE74_STR1_MEDTR |
| rubus_idaeus_g922.t1 | Alkaloid | STR | low | borderline | STR__00002__sp_P68175_STSY_RAUSE |
| rubus_idaeus_g923.t1 | Alkaloid | STR | low | borderline | STR__00002__sp_P68175_STSY_RAUSE |
| rubus_idaeus_g9446.t1 | Alkaloid | STR | low | borderline | STR__00001__sp_D3GE74_STR1_MEDTR |
| rubus_idaeus_g9447.t1 | Alkaloid | STR | low | borderline | STR__00001__sp_D3GE74_STR1_MEDTR |
| rubus_idaeus_g9450.t1 | Alkaloid | STR | low | borderline | STR__00001__sp_D3GE74_STR1_MEDTR |
| rubus_idaeus_g9451.t1 | Alkaloid | STR | low | borderline | STR__00001__sp_D3GE74_STR1_MEDTR |