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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300025925 Open in IMG/M |
| Scaffold ID | Ga0207650_10000010 Open in IMG/M |
| Source Dataset Name | Switchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S6-3 metaG (SPAdes) |
| 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) | 454110 |
| Total Scaffold Genes | 343 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 259 (75.51%) |
| Novel Protein Genes | 5 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 5 (100.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Switchgrass 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? |
|---|---|---|---|
| F019537 | Metagenome / Metatranscriptome | 229 | Y |
| F057467 | Metagenome | 136 | N |
| F061251 | Metagenome / Metatranscriptome | 132 | Y |
| F103843 | Metagenome | 101 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0207650_10000010243 | F061251 | AGG | MSESNPPRVLGDKVWCPRCGDYVKFVRVSGAAKIVDVDRWTVYNYVKRNKVYSVKVAGSTLRVCSHCLLRPQ |
| Ga0207650_10000010258 | F103843 | AGGAGG | MKRISVVAAFTLTVAMCLCTLSVLIRPVFAMECTANCGRGKVTCYGHTCTAKDGEGCSSHDQNGTLIIALDCNKEMEIL |
| Ga0207650_10000010283 | F019537 | AGGAG | MKRKLGAWVSAQTNTVHIDQKLLMHSRAARVGKRLMQASVVLNLLAPVLVICLTAVCTMAQGPSGGTIFGGNDQTLGNGIRELIKWGRNLLFLLGVGGIGWAVFNYMTEKNWAKQAIGGGFCMAFGSIASLVYSFSQGSAVNLDTDLGN |
| Ga0207650_10000010293 | F061251 | AGG | MTESNPPRVLGEKVWCPRCGEYVKLVRVAQAGKLVDVDRRTIYNYVKKDKVYSVKVAGSTMRICSHCLLREK |
| Ga0207650_1000001091 | F057467 | GGA | MKASEVMEMLSEHAASQKKVCSILNRDGGTEIMKKAGETSLLALSLLLLVSVSAVAQERQTPYIYALSNPVFISPNQTSGSVTLVWDGGKDHPYAEVWVRVDQNDETFIVEQGKGTRRSTVEFGKHYVFKLSDANVLLAQVSVTVERGDVSAQPTPAPMTAPDYQPLYAVNGKIRWKKAFGVVPVSSSLQDSIDNRCISFYVAALDPRTNQPLRGDHSQMWKAEDEGDYYVCRYALKLPTATQVRVVAQMGGDGLLPNPDPNPLFLTRAWVGGDPSQSRPPQGAIRAFTGSKYATVDRRTPRATVDFELYYALPKSDGPH |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |