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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300021960 Open in IMG/M |
| Scaffold ID | Ga0222715_10031095 Open in IMG/M |
| Source Dataset Name | Estuarine water microbial communities from San Francisco Bay, California, United States - C33_9D |
| 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) | 3847 |
| Total Scaffold Genes | 8 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 7 (87.50%) |
| Novel Protein Genes | 6 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 5 (83.33%) |
| Associated Families | 6 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Rhodospirillaceae → unclassified Rhodospirillaceae → Rhodospirillaceae bacterium | (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) | 38.0566 | Long. (o) | -122.185 | Alt. (m) | Depth (m) | 29 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001839 | Metagenome | 628 | Y |
| F004990 | Metagenome | 416 | Y |
| F008915 | Metagenome / Metatranscriptome | 326 | Y |
| F011253 | Metagenome | 293 | Y |
| F026438 | Metagenome | 198 | N |
| F092873 | Metagenome | 107 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0222715_100310951 | F026438 | N/A | MANHINVIGDSYTKFGLKHTSKSTACLPHTIRFFKKHILTPKENSEISNASFIGGTLIHMIVQESLTKKLSLDEVIKSELIQTKIDNYEPNDEKDKKKFEFIVKAAPETAQNHLDNIDDLGQYEWSDEQEQVLWTPPVNTYWLMYIDLIGKLAKDKDPEVLGDLKNKFGTVTLTKTKGWTYTNVKCPDRPFYSDVQQVSLYQKATGLKPFLSYASNCDRKLFTQDNCEDLKQENLDK |
| Ga0222715_100310952 | F092873 | GAG | MNNILNKKFIEVAAKSGYNSDFIESYMIKKELTAKGFTFRRSALDQLLKKNSKKISDFIRDTYLPKEQKNKFAQISKILNPKKNAPKYFTENDLAFDLSHWFNSFSNGDVLVSPEYFIGDTVEIPVIGSLFGNGQVRLHKGREITKINIHPKYANCHAIESQIGSSRGYMRLFVPSKNICHLANNRFGFAQDKKSKIIWCGYIEPQSNGKYNILDKSYSTGKTYGASVENISLSWSVEIKAEYYPTFYNN |
| Ga0222715_100310954 | F008915 | AGGGGG | VNNEVNLDLYEMQSAAHLGILRCLESKKHKESWGYNYKGSLNDQMAKSISGAMGEVATAKFLNCSKFEYHCNVGGVPDLVFKDLKLQVRTQLPKNNNNNSLIIRPKAKPGEFYILVIDEAPKFKILGFVNSTYVLGQEQWKTTFGLDRPFCYSIPPEKLTPINLLKDSTWN |
| Ga0222715_100310955 | F004990 | GGA | MYGDPKKKCCACENTADLRESNKYYCCDHYALYVLGKPMSQIEKELNNE |
| Ga0222715_100310957 | F001839 | GAG | MKYFEKIDKDLINNRALNSHEKLIYIICKSFKNAPRGCRISHKYLMIRTGIKTKAKLISHLDRLSLFGLMARKQIDNGTCHYVFDKPTMQEYIQHNLNKRRKISLSKNRHKRNLDRALSYPNIINIPKVIK |
| Ga0222715_100310958 | F011253 | AGG | MKDRKLEINNIIKNFAKNKSLPYSAAITKIKKDRKGYFQAKDIKQKQKSLSTDRFQQ |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |