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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300012200 Open in IMG/M |
| Scaffold ID | Ga0137382_10000003 Open in IMG/M |
| Source Dataset Name | Vadose zone soil microbial communities from Sagehorn Ranch, Mendocino, California, USA - Sage2_R_20_16 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) | 115349 |
| Total Scaffold Genes | 96 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 65 (67.71%) |
| Novel Protein Genes | 3 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 2 (66.67%) |
| Associated Families | 3 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (Source: IMG/M) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: California | |||||||
| Coordinates | Lat. (o) | 39.5673 | Long. (o) | -123.4758 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F003718 | Metagenome / Metatranscriptome | 472 | Y |
| F005190 | Metagenome | 409 | Y |
| F025474 | Metagenome / Metatranscriptome | 201 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0137382_1000000341 | F003718 | N/A | MRKAAVFTIGVALSALTFVSGARAQSDTGALEFVARITPTAARPEPVRQFTFYILTRSYSEIVKEVEEKDPAPQRDQFIDGLKVSPELRTWLKAHDTLDLTEPELDKMLTPDDILNTPEFLLAYQRTNSGGVTMGFPQPKFSEIDQTEHPEKYKKLREDYFTTLRKFIRKRPETISGVEMELDAVNPQKKWQVLQNDRRKRVRRLAPDVAQIKFLASKADTDLEGRATVSGLAPGDYWVSTLNLDADAGDMRVRWDVPVKIERGKTVRVELSNLNSIDAHGSTP* |
| Ga0137382_1000000389 | F025474 | AGGAG | VATTGAAKAKQDSLPRSVTITIRDQTPRPSGKVEVEPWKGRVHFTNEDKKDYRLRFWKSNTEPLAGIDILLPAKGSVTIMIKKGDEFHFGVFHTKGDEASLGKGGGPIIN* |
| Ga0137382_100000039 | F005190 | GGAGG | MKSNNIAHQRALQLIAQARVEGIPDTDRNWLRAHLEECDFCAEHARRTDRALRMLRTATISLPEGLASRTQFRVRLRAQELREREPRRRALWLACVLSWIFGVASAPYVWSLFQWLGQRTGVPKLVWEVGFGLWWSIPALFAVAVLLMESSRKGEQADWINLGS* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |