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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300005840 Open in IMG/M |
| Scaffold ID | Ga0068870_10000543 Open in IMG/M |
| Source Dataset Name | Miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Miscanthus M6-2 |
| 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) | 14269 |
| Total Scaffold Genes | 27 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 24 (88.89%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (75.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Michigan, Kellogg Biological Station | |||||||
| Coordinates | Lat. (o) | 42.3948 | Long. (o) | -85.3738 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F006592 | Metagenome | 369 | Y |
| F039688 | Metagenome | 163 | Y |
| F051995 | Metagenome / Metatranscriptome | 143 | N |
| F085773 | Metagenome | 111 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0068870_1000054318 | F051995 | GGA | MTDYDPERVDLRIESRQGKLAANAEAIERWQRKLFRAANELQKLVAQRKRLLNPARGKLVYKGENLTGMGGGAVDGMDDEIPL* |
| Ga0068870_1000054327 | F006592 | N/A | MNQERFVGIVVGMTTVAITLLVLGQFEREAEGKIPFDCSDPTERERVREIALAGIDDGLKQAMAHLFEVWVRDPNTEQPKRAQVGTTNAVNAHIRARKLALEWAPPPC* |
| Ga0068870_100005433 | F085773 | GAGG | MNRLLLAAVLLAGTALMTPASAATLTVSALADDQVVPQSASAPCIICATTQAHNPVGFGYNNFNSTGNDASFNLFSSNITGSFANDDDTTVTPYTGSQLSNFLTSVGDLNLSFGVAIDVNSTSAKSEVLQQFRLIDLDQSGDGPLGSLVLFSILNPVPLPDIRNGNGSADYLITGFNLSGLANLGDRLLFQATWSGAVDGGESFYIVPLAAVPIPAALPMFAAGLAGLGLLAARRKKKQIDVAAA* |
| Ga0068870_100005438 | F039688 | GAGG | MNRYVIMAKENYPGATIKEICRCNSNAGDIRNALADYTVTGSQGTRIYKYNHVEILKVSGIKRKEASAQMKKPIRNVDDFSGKPSANQIASVLEQIDAMRAANGEQAAQGPAAQARPPLPQRKLEAEP* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |