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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300014486 Open in IMG/M |
| Scaffold ID | Ga0182004_10047644 Open in IMG/M |
| Source Dataset Name | Endophyte microbial communities from Sorghum bicolor roots, Mead, Nebraska, USA - 072115-40_1 MetaG |
| 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) | 2564 |
| Total Scaffold Genes | 5 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 2 (40.00%) |
| Novel Protein Genes | 3 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 1 (33.33%) |
| Associated Families | 3 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Andropogonodae → Andropogoneae → Sorghinae → Sorghum → Sorghum bicolor | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Host-Associated → Plants → Roots → Unclassified → Unclassified → Root → Sorghum-Associated Microbial Communities From Plants Grown In Nebraska, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Nebraska | |||||||
| Coordinates | Lat. (o) | 41.1613 | Long. (o) | -96.6752 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F003532 | Metagenome | 480 | Y |
| F005468 | Metagenome | 399 | Y |
| F019261 | Metagenome | 230 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0182004_100476441 | F005468 | N/A | PAPKVMLLTDVTSLVLVLPVVDLSLIVLQIGDVDRCAVYISLAPGMENPAGVDPPEGDAARCARYTSSEEEQNDPAPTTEERVAGKRPLAVDPSPAEALPAESSQAPKRHRLVRITDDDEEEEAAPSLVQRLRSRPDATPVTTGRVTSDPPAPHAEPTRVIETGAQAPTGRTRRRFTATHRRSDL* |
| Ga0182004_100476444 | F003532 | AGG | MKTAKYRKRCFDQIVGIVAENKALSAEVDQLRSETGEKTAEMSAQEESLLDLNRRLADQDRQRSGQSRIPSSCM* |
| Ga0182004_100476445 | F019261 | N/A | VLKVNTKKYLDELIKDRDSWKTNCIKLWKGVAPVLDLISPELPKDQPRAPKLTPVEKAQWAWGWLQQFVKDAGEFASTHVLSMVCAHYPLVDLSRLERGYPKEVGPQEVDDLRVGLLDLSSTVIGDINLCGTATPPDQPGSDRSARELSGASIARDGRSTPAVSTSQAPVAPTPPTGQQGRAGDQPEQ* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |