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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300021320 Open in IMG/M |
| Scaffold ID | Ga0214544_1012277 Open in IMG/M |
| Source Dataset Name | Root nodule microbial communities from cowpea collected in UCLA plant growth center, Los Angeles, California, USA - CNSS3 |
| 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) | 11268 |
| Total Scaffold Genes | 21 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 17 (80.95%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (75.00%) |
| Associated Families | 4 |
| 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 | USA: California | |||||||
| Coordinates | Lat. (o) | 34.06 | Long. (o) | -118.44 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F007299 | Metagenome | 353 | Y |
| F019604 | Metagenome | 228 | Y |
| F046864 | Metagenome | 150 | Y |
| F089948 | Metagenome | 108 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0214544_101227715 | F089948 | GGTGG | LVISALGGVVVLRCGGIRSACRASSRMREQATVRGAYLVKRGWRGSRGRVSGRGLGCGVGLAVLAA |
| Ga0214544_101227720 | F046864 | AGG | VGLYSLSSSLGWKAGDFATLEVSLAFPFRLGSASILRLRREFSCRSASISSALRFFKSASSYCIFAWPSRMAAISGVMPGGPEGPASACLFTPALLRVETIFREKRVLKVFVSCPTVGANGSCREQIR |
| Ga0214544_10122777 | F019604 | N/A | VPPSFKSFKDGYFKVVVKEGGKAHFLNADGSTKFPFSWTGNPSRYKDMVMDELSAGDKEVVEILLKFVDKLPTKGLVRVYNSVHPIIDIEGICLLLKLC |
| Ga0214544_10122778 | F007299 | AGG | MAQSGKKNLALFQSLRKEMAAKAKAAGKTDIPNLQESVVEVHVHGGMKRKAELPPRHGKGKDVKRVRAALLGPGSASGAGSASGEKGPESGLIELLEISVRKDISITLPDTIVNSIDGMDADHIVRTMVEFGSKALVLSHRVGSLYEREVKEGVGRGWRSCRGRLTS |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |