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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300021959 Open in IMG/M |
| Scaffold ID | Ga0222716_10005480 Open in IMG/M |
| Source Dataset Name | Estuarine water microbial communities from San Francisco Bay, California, United States - C33_13D |
| 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) | 9870 |
| Total Scaffold Genes | 22 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 3 (13.64%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 0 (0.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (Source: UniRef50) |
| 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) | 38.0283 | Long. (o) | -122.37 | Alt. (m) | Depth (m) | 10 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000710 | Metagenome / Metatranscriptome | 925 | Y |
| F015342 | Metagenome / Metatranscriptome | 255 | Y |
| F025285 | Metagenome / Metatranscriptome | 202 | Y |
| F039045 | Metagenome | 164 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0222716_1000548012 | F015342 | N/A | MSVAANMPARNVKGNVQAQDKILYVANKLGLSSLKYMQATTRVIYDQSVTAATQHTLFEGAAARSFPLTNLGANGNQFQVDEALLVEKIAFFVPDAADGQNFGAATTSYKFDLIIGNKTVMKDVVVELNGQQAFYNDGAAFSTCLDLEGVGILIPPQVEFKIDVKPLNPQTRAAQSIRIGCYMFGTGVLLNFNTSI |
| Ga0222716_1000548013 | F025285 | N/A | MSQVSKLNMVNSKLGATMPGQQTTRYIYDSITTAAGQTTFNFFQTFAGKSDLQSNLTTNKLDSSESMVIKSIYVATSSTAGLSGHSNLNITVGNQVVLKDFNLAFNSTNRGVSYDRLHSSASDDDIVEVRLLTDIVIPPQVNFKATLELAENTTLVNESITIGFKGYGTIFSAGSTF |
| Ga0222716_1000548014 | F000710 | N/A | MPMNDISYRQGLRTKGFQTTVPATGANQTLSLSGLAKQFEGILFTSTTSAAPQTIIDPAQLRVTLIINNDVVIDDDVAYHYAVSATGGFSGGFPFFIPFPRRLTGQDTILLKVTNSSGASQLLNTTVYYRNEI |
| Ga0222716_1000548015 | F039045 | N/A | MSIAIPTLIEKDIRCGKARYSTYQTGMGGQSVLVVPDNSYIIIFGYDYSPAGGGFLYSDEISIPNAAKLTSAAIAPFETQQISFYTGQAFHPFIHHVDIQHGAYVRTFNPATGSTTAGNQIQSVDNKPQTRSTYIISNRSVAITVGLIQRVERNAASAIPVTDKTPANLTYGGSAAVMNVESIFSSNLANPPSQVQPSLQQFQDYGLGGVPGNAQDQAFALPDQVDGLIEPTKYLLDTFGLSTVERAGSNYFLNVHYALYTNQTPEQLG |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |