Rubus idaeus (rubus_idaeus)
Imported from atlas release summary for Rubus idaeus.
2016
Candidate Protein Records
1792
Pathway-Level Records
4497
Family-Level Calls
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 protein/isoform records 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.
- Download candidate protein FASTA for this species
Pathway Coverage
6
Pathways
Family Distribution
4497
Family-Level Calls
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 | Pathway-Level Records | Detected 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 | Detected families | Assignment calls | 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 protein/isoform identification results for this species; click pathway or family legends above to narrow within this species.
| Protein/Isoform Record | Pathway | Family | Confidence | Status |
|---|---|---|---|---|
| rubus_idaeus_g714.t1 | Alkaloid | PMT | medium | pass |
| rubus_idaeus_g9563.t1 | Alkaloid | PMT | medium | pass |
| rubus_idaeus_g10056.t1 | Alkaloid | PYKS | low | borderline |
| rubus_idaeus_g10312.t1 | Alkaloid | PYKS | low | borderline |
| rubus_idaeus_g15283.t1 | Alkaloid | PYKS | high | pass |
| rubus_idaeus_g15657.t1 | Alkaloid | PYKS | low | borderline |
| rubus_idaeus_g16811.t1 | Alkaloid | PYKS | high | pass |
| rubus_idaeus_g16812.t1 | Alkaloid | PYKS | high | pass |
| rubus_idaeus_g16992.t1 | Alkaloid | PYKS | low | borderline |
| rubus_idaeus_g21214.t1 | Alkaloid | PYKS | low | borderline |
| rubus_idaeus_g30117.t1 | Alkaloid | PYKS | low | borderline |
| rubus_idaeus_g30122.t1 | Alkaloid | PYKS | low | borderline |
| rubus_idaeus_g30123.t1 | Alkaloid | PYKS | low | borderline |
| rubus_idaeus_g30125.t1 | Alkaloid | PYKS | low | borderline |
| rubus_idaeus_g30126.t1 | Alkaloid | PYKS | low | borderline |
| rubus_idaeus_g32890.t1 | Alkaloid | PYKS | medium | pass |
| rubus_idaeus_g33995.t1 | Alkaloid | PYKS | low | borderline |
| rubus_idaeus_g35850.t1 | Alkaloid | PYKS | low | borderline |
| rubus_idaeus_g372.t1 | Alkaloid | PYKS | low | borderline |
| rubus_idaeus_g4823.t1 | Alkaloid | PYKS | high | pass |
| rubus_idaeus_g5705.t1 | Alkaloid | PYKS | low | borderline |
| rubus_idaeus_g5917.t1 | Alkaloid | PYKS | low | borderline |
| rubus_idaeus_g5921.t1 | Alkaloid | PYKS | low | borderline |
| rubus_idaeus_g7247.t1 | Alkaloid | PYKS | low | borderline |
| rubus_idaeus_g9288.t1 | Alkaloid | PYKS | high | pass |
| rubus_idaeus_g9289.t1 | Alkaloid | PYKS | high | pass |
| rubus_idaeus_g9434.t1 | Alkaloid | PYKS | low | borderline |
| rubus_idaeus_g10701.t1 | Alkaloid | SGD | medium | pass |
| rubus_idaeus_g12802.t1 | Alkaloid | SGD | medium | pass |
| rubus_idaeus_g13109.t1 | Alkaloid | SGD | medium | pass |
| rubus_idaeus_g13111.t1 | Alkaloid | SGD | low | borderline |
| rubus_idaeus_g13115.t1 | Alkaloid | SGD | medium | pass |
| rubus_idaeus_g16139.t1 | Alkaloid | SGD | medium | pass |
| rubus_idaeus_g16563.t1 | Alkaloid | SGD | medium | pass |
| rubus_idaeus_g16564.t1 | Alkaloid | SGD | medium | pass |
| rubus_idaeus_g16565.t1 | Alkaloid | SGD | medium | pass |
| rubus_idaeus_g16566.t1 | Alkaloid | SGD | low | borderline |
| rubus_idaeus_g16568.t1 | Alkaloid | SGD | medium | pass |
| rubus_idaeus_g16569.t1 | Alkaloid | SGD | medium | pass |
| rubus_idaeus_g16570.t1 | Alkaloid | SGD | low | borderline |
| rubus_idaeus_g20592.t1 | Alkaloid | SGD | low | borderline |
| rubus_idaeus_g21403.t1 | Alkaloid | SGD | medium | pass |
| rubus_idaeus_g24379.t1 | Alkaloid | SGD | low | borderline |
| rubus_idaeus_g24382.t1 | Alkaloid | SGD | medium | pass |
| rubus_idaeus_g24425.t1 | Alkaloid | SGD | medium | pass |
| rubus_idaeus_g26518.t1 | Alkaloid | SGD | medium | pass |
| rubus_idaeus_g26522.t1 | Alkaloid | SGD | medium | pass |
| rubus_idaeus_g28312.t1 | Alkaloid | SGD | medium | pass |
| rubus_idaeus_g28835.t1 | Alkaloid | SGD | medium | pass |
| rubus_idaeus_g28837.t1 | Alkaloid | SGD | medium | pass |