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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_10001585 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) | 25493 |
| Total Scaffold Genes | 38 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 12 (31.58%) |
| Novel Protein Genes | 7 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (42.86%) |
| Associated Families | 7 |
| 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? |
|---|---|---|---|
| F007167 | Metagenome / Metatranscriptome | 356 | N |
| F008746 | Metagenome / Metatranscriptome | 328 | N |
| F019819 | Metagenome / Metatranscriptome | 227 | N |
| F021101 | Metagenome / Metatranscriptome | 220 | N |
| F042805 | Metagenome / Metatranscriptome | 157 | N |
| F078652 | Metagenome / Metatranscriptome | 116 | N |
| F100545 | Metagenome / Metatranscriptome | 102 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0222714_1000158511 | F078652 | N/A | MAHYKINSSELGNLAGYGAKFCSPREAAEKFWKRNRPGAFNEYVKNHGQPTWHKKDAFVYGNANAKQIMEEARKVNTETTSDIGGILKSVSDDKRATNFTPEQKQFLEEATRTRVFQHHGTRKEDSTLDQWCTQNGKDAHKPTKKFTLQVHPEVTLNGYIDGITTDDELVEIKNRAGGRLFNEVRDYEMAQCQAYLRMLKIDRGFLVECLRQEGREPKLNTIPFTRDDEFWEDTIERVLTNIFDPRFECFRVTETDQSAS |
| Ga0222714_1000158512 | F007167 | N/A | MEVKDAVFDFYLSPSSAVYIPKEGVESKKMKDGTIIKVPKYMYHPLTIEIMPRADYKTIQHPKRKKFLFSMRETKPVPADIRKYIENPEPEKLREALVVIQRRIRQMFETPIQTMTLVAFRFDGVPWKVHRMHWDEKQEVSYRKDGEWVTTTMKRLGNPWDLKNKVERDRKKAELFNVISNLLEDKDKIPYVSRMLIDRFR |
| Ga0222714_1000158513 | F042805 | AGG | MKVTFPGWFGWFEEETLEDKDKVSIIENCFMEIKDVYAEKLLWPSIYMEEDGYDSEDDLEMIWHYSEAQSYLEEYLEKNGYNRDYYHIMHVEATFHEPGKEPRKLKFYVKEITCEIRHPGGNCPDEMFKWWVCEDKYGDFDEYINDIPDENYRIFLYCLNKAWQDVKALPECITKLIDTQRPKR |
| Ga0222714_1000158518 | F100545 | GAG | MESTDRSFTVIDIRKPGQGGKKTSIPSDGGRYVSKTPFSAARKGFSKACREKRIRGQCTFIVTIQETTRGENGKVFSYKLKREKLKEPKEITRGGGVLGGGVPITIEYSISGKAVPVPKG |
| Ga0222714_1000158526 | F019819 | N/A | MLFNETTASDFIIEGSDDSKFIFIKGPDVQIPKFRCPFGVSCFETDYGAPKYNLELEIHESERSKMFMDWLTKIEKYIVDYVCSNAMDIFGKEMGREQIQNMFRSNLKENRFRVKIDKDTLSKDADGNINDILCKGAMKGNTCVCVLRLKMVYFMNNNFGLVWNATQTSFGQSKQPPQGPDFGQYQFLD |
| Ga0222714_100015854 | F021101 | AGAAG | MWFVPLFIGIHSFFEKKLSPKKTHTLVNLFHMASVFTWNPGFAVSKSYFLADFFLLYKNRQSYPGLWQLLLAHHVVSYAILVTEQESEDVDLALKWAEVSNLSLAVYELYPNTFTKTMRVIIYPWSRCVMLPMVLVESTKTIGVKALALGVPIVGGSFWWSWKIIKDFLRK |
| Ga0222714_100015857 | F008746 | N/A | MERLISKLNRPPVRFNKDGFLKSLNKNAKQAIIALKDAPELKKAVIVDVLQRFNKIIKAAKFPDDVSMVRNGFFLYGGQVIHEVFQQTKKLVDPKIRVAMEMTPSSDYDGQLILKFKKDGKLSRAENISKETKLKKFLLKVMEKAAEPYGPLFKVSIATKLPHVIDITLADAKTGFDYAEIHVVNGYMKERIGNEYTERGADRLAQTKCCVETLKSLGLPVLNLKSLLYDQLFALDSMLTGNSHRKAVRPDKCQQRFIRMTFIYDLMKKTKKSIPKNVSLLVNEIVMRMDQPKYKNYFKQCSVKIH |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |