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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300021961 Open in IMG/M |
| Scaffold ID | Ga0222714_10005018 Open in IMG/M |
| Source Dataset Name | Estuarine water microbial communities from San Francisco Bay, California, United States - C33_3D |
| 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) | 12727 |
| Total Scaffold Genes | 32 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 26 (81.25%) |
| Novel Protein Genes | 13 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 11 (84.62%) |
| Associated Families | 13 |
| Taxonomy | |
|---|---|
| Not Available | (Source: ) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: California | |||||||
| Coordinates | Lat. (o) | 38.0516 | Long. (o) | -121.88 | Alt. (m) | Depth (m) | 13 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000473 | Metagenome / Metatranscriptome | 1097 | Y |
| F000671 | Metagenome / Metatranscriptome | 945 | Y |
| F001176 | Metagenome / Metatranscriptome | 756 | Y |
| F001280 | Metagenome / Metatranscriptome | 732 | Y |
| F002060 | Metagenome / Metatranscriptome | 597 | Y |
| F003582 | Metagenome / Metatranscriptome | 478 | Y |
| F007921 | Metagenome / Metatranscriptome | 342 | Y |
| F010248 | Metagenome / Metatranscriptome | 306 | Y |
| F013878 | Metagenome / Metatranscriptome | 267 | Y |
| F039131 | Metagenome / Metatranscriptome | 164 | Y |
| F061853 | Metagenome / Metatranscriptome | 131 | Y |
| F084237 | Metagenome | 112 | N |
| F105175 | Metagenome / Metatranscriptome | 100 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0222714_1000501811 | F039131 | N/A | MKDNDLYKLEEYFEKKYKKEIIDQIKKFEFPNEWTPSQVIDYITYKIDRK |
| Ga0222714_1000501818 | F010248 | GAG | VRKSERIRLLEMEMLRMQFQIEYVSRAIDILLQENKIAGPEMDAGKWYNTKLNKDK |
| Ga0222714_100050182 | F007921 | GGAGG | MINWLVNRIFRWDPLREAIFDEVRLYQSVDRAMWEHERENPTNLTWSEGDRWYGWTYNSNAKRYYFDDIGNKSLMGLWEDQWLREADGQKSL |
| Ga0222714_1000501821 | F002060 | N/A | MDYTSIVIAISAAVLSGMGTAIIAGLKENKREKVRQHEREQDHLKLEVKDLKIELYKIERELTEWKDKYYNAIQELIGVKAELEETLIKLSFIDHHIEDMQGLDREF |
| Ga0222714_1000501822 | F000671 | GAGG | MEKILCYSCNKSKNKLDVKKSSLLPINLFICESCISAKLEPRWVVILAGRSQGPDYVKEFIIKRRYIGNEITASELLV |
| Ga0222714_1000501824 | F000473 | AGAAG | MFINKDKDHFKYGINQWTGEPNKPVFYTEEMKKAVHQVKKPSMLLMDIVMYPDFLALRLYEDNFLQFDGVKKEMVIDYVTKIKRLLESYGVRCELEGKPSERVL |
| Ga0222714_1000501826 | F013878 | AGG | MLNLTELGVEVFIKKAKNITPYWDNYDLIIWKKDSSGFTNIKGMFRENSWGTAERIAVANNGIWKLPTKYVKHFK |
| Ga0222714_1000501828 | F003582 | GGA | MNTYKVKLEVEAEVEAFDEGDALDYANDIFGVDDEIKNVKVISVKEK |
| Ga0222714_100050183 | F084237 | GAG | MTEMTSVGDDRDRSMRLKLAIEEMLKDIDMSGEAWNDYDKDGKPYWEKYEERLKYMEENG |
| Ga0222714_100050184 | F061853 | GAG | MNKKTITLLSLGLALAAISYVVYNTLTQLKDIDYDLFDIEEDIDHE |
| Ga0222714_100050187 | F001176 | GGA | MATPPNTQPSGAVTSQEAARKNPSQGKFRSGVNGPRPATKIDRNKHGIRRETTIGQKKTRPKKV |
| Ga0222714_100050188 | F001280 | GGCGG | MCVECGCESVGSEAGIVNIPGGILDVSRDGEAGLTLNMTATASQRESFISGE |
| Ga0222714_100050189 | F105175 | AGGAG | MDGKDLNGFTAPKVNDAPVWAPESYTEAPAAAFPATDKSSQDGAGLGNGGK |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |