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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300006943 Open in IMG/M |
| Scaffold ID | Ga0099822_1017626 Open in IMG/M |
| Source Dataset Name | Root nodule microbial communities of legume samples collected from California USA - Cow pea white BW |
| Source Dataset Category | Metagenome |
| Source Dataset Use Policy | Open |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Sequencing Status | Permanent Draft |
| Scaffold Components | |
|---|---|
| Scaffold Length (bps) | 7601 |
| Total Scaffold Genes | 16 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 10 (62.50%) |
| Novel Protein Genes | 3 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (100.00%) |
| Associated Families | 3 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Fabales → Fabaceae → Papilionoideae → 50 kb inversion clade → NPAAA clade → indigoferoid/millettioid clade → Phaseoleae → Vigna → Vigna unguiculata | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Root Nodules → Root Nodule Microbial Communities Of Legume Samples Collected From Usa, Mexico And Botswana |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | California, USA | |||||||
| Coordinates | Lat. (o) | 34.0722 | Long. (o) | -118.4441 | Alt. (m) | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F007299 | Metagenome | 353 | Y |
| F019604 | Metagenome | 228 | Y |
| F074464 | Metagenome | 119 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0099822_101762614 | F074464 | GGAG | VDVCGQVEGVTGSRGGGMVVPTDEATKVVSTDQFFYFILECFAFFCSVAMVAVVTTIFGHVGVGGCGCLARWRD* |
| Ga0099822_10176262 | F019604 | GAGG | LNADGSTKFPFSWTSNPSRYKDMGIEELSAGDKEVVGMLLKFVDKLPTKDLVRVYNSVHPIIDMESICLLLKLC* |
| Ga0099822_10176263 | F007299 | GAGG | MAAKAKAVGKTDVPNLQESVVEVHVHGGTKRKVELPPRPRKGKDVKKVRAALLGTGSASGAGSTSGEKGPEAGLIELSEISMRKDISITLPDTIVNSIDNMDAEHIVRTMVEFGSKALVLSRRVGSLYRREVKEGGWEKVEEL* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |