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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300021958 Open in IMG/M |
| Scaffold ID | Ga0222718_10004200 Open in IMG/M |
| Source Dataset Name | Estuarine water microbial communities from San Francisco Bay, California, United States - C33_27D |
| 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) | 12079 |
| Total Scaffold Genes | 20 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 10 (50.00%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 2 (50.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Proteobacteria | (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) | 37.6183 | Long. (o) | -122.2916 | Alt. (m) | Depth (m) | 12 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000464 | Metagenome / Metatranscriptome | 1105 | Y |
| F001656 | Metagenome / Metatranscriptome | 656 | Y |
| F035123 | Metagenome / Metatranscriptome | 173 | Y |
| F056138 | Metagenome | 138 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0222718_100042001 | F035123 | GAG | MLDHSSKYEIKTMAMDEIQPASIYEEIPDRDELEDSIAIGEMDYPLMLWPVTQDYWRNIHLKFYKRGSPDLPEEAPERDGEVLIVWRGRQRYQLAKEMGYTHIDCVVEKEQHKIVSMIQR |
| Ga0222718_1000420010 | F056138 | N/A | MPLNITKMKKLLINGCSFVEYWQLSNQFIDSTGCDEVVNLGKAGTSFQRTVRSTVEWISQNGNPAFVMIALTFAHRWELALNKDEDEIDGSWVPLQNSNFLDESFNLQDSSINDIQKLCDDYYKIIPTIKTYWDKMFTDLITFTGFLESKNIPYLVWDMSNGFDKQHIRGYKGFNKIKLIEQNKRIIDLWEFCGNRFMRNTMPDHIKKDIPEFAYHHEPAQHRHLEKYITSYMQNNLHL |
| Ga0222718_1000420011 | F000464 | N/A | MYSHHDHDMDFEEEFWPIMGILFTMLALWTGFVHIVDWLTLDVIPWWAESFTITPVIFLIVMKERYYSLNPLHWWPLFCGYNVTLPDREVITIRPLDQERIMKQYGGMMNVHIVDYETLKFRRRKDAVIFNLRHG |
| Ga0222718_100042002 | F001656 | AGGAG | MPATSNNSGNMARRQAFNGKGLTFVDVIFDNAITASATTPEAKDSSFDKVSKVVNKNGTLLAQSYSLARKATDEDASEAAAIDADDSIDVYQFIVEGTPGQYNKADSTGDINMDVDATVTADAEADLEADILAVLDIDDSTENVHVKIKTLLHDGHPSTDSSLDAGFTGMFDARGDA |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |