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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300024346 Open in IMG/M |
| Scaffold ID | Ga0244775_10002745 Open in IMG/M |
| Source Dataset Name | Whole water sample coassembly |
| 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) | 18952 |
| Total Scaffold Genes | 26 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 12 (46.15%) |
| Novel Protein Genes | 7 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (57.14%) |
| Associated Families | 7 |
| Taxonomy | |
|---|---|
| Not Available | (Source: ) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Columbia River Estuary | |||||||
| Coordinates | Lat. (o) | 46.234 | Long. (o) | -123.9135 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000557 | Metagenome / Metatranscriptome | 1026 | N |
| F002356 | Metagenome / Metatranscriptome | 567 | N |
| F006503 | Metagenome / Metatranscriptome | 371 | N |
| F006621 | Metagenome / Metatranscriptome | 368 | Y |
| F007111 | Metagenome / Metatranscriptome | 357 | N |
| F008996 | Metagenome | 324 | N |
| F032960 | Metagenome / Metatranscriptome | 178 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0244775_1000274511 | F008996 | N/A | MKLLANIAYHHNPERIPNLIRVIEAIKSYPVQADIFVDTNDPEVVGLLADEPVTVHAHTQLSHPWMLTAVHRTRIKETYKYFDWVAYFEDDMMLPKEGFVNFTERFDSMFADGLYPSFTRIETYDDKEGECTPDVNEVLPSSVWCQYNGKDYVSLPFFINYHAFWMFSTKRLKEVLTRNPEELDKIPDNGLFRESLASFPIWSLGLKPMLEFTEQGELADHCKVFHLTNNYKHGSTNIKTLFKR |
| Ga0244775_1000274513 | F000557 | N/A | MKLQDLTIDQFQRIGAIEFSSVLGDYDKRAGVVAIVEGVDISIVREMPAKSVLKRYKAIISEWNALPALGYKRKFKAGGKWWIPTVFTDELTAGQLIELMDANTTDEKQLLQNLHRIMATLCREGGLFGLFPKKYDGAAHAERAELMKKHAKVGDVWGVVSFFLLSSESYLKVLSDYSKHLMKTAGELT |
| Ga0244775_1000274515 | F007111 | GGGGG | METTILANGQPVGKFGSGSMKGIDQTALEGIGSIAGPKSGGKSPTYDVLIKWIERVIELAKKNLEAANANAGGTLSASIAPEDIELSAKQIVVAIMANPYWKYVDQGVHGRSSSYISARDSKFRYDKNIPPPQAIADWIANKGIPVVPTYSRKLKRMRTKQEQGLVLGRTMAFAIRERGVRGTKFMSNALSPEMIDVLVNTIAETLGKSISVATKL |
| Ga0244775_1000274516 | F032960 | AGG | VATPVYNKMLFKVSGSLTAQPNYRYVCDVKNPAGTTLARLKCDKLPSTNFGFFDVAKVVETLIAPTKPSLTQTGFVDHAGYYSGYRLDFMEEYGNTPVVYTGTVTTVSGRVAFAGNLEQLELATWSSTLYFPSGAIVNDTNRMLTTPTTRTVYADGYGWLSIGQFNYAVEKAYIQYWSATGATFARQFDVLASSVSGSNVVRFGVGPMNLKALTSGQCLDGNPGDYLFQGNAGDFYDVYFSRGANITIRQRYVIGQCQRFNSIPVHFQNKYGGIDSYTFTLKNRKRANITRQTFGYNSDVYATTTYDKVWAGEFDYVYALNSDWLTDAESAWLIEMIRSGQVWLELDGQLVEAIVNANTYQFTTRRNDRLTQLQVEVAVAYKNNIL |
| Ga0244775_1000274520 | F002356 | N/A | MNLKNAIESLRTELRKFSTQKQSFADYKLTDGTVVRVDGDLVAGTAVYVVAEEGTLPAPDGEHVVEGVGTIKTEGGKIVEVIAAEVATPVIEPLPVAAEITPEVAVEVTEEIKDAYPAMTPEVVEAIVAKHLAGIMEDLKAAYAEMGKMKEKMSAFASQVETMADIVEKVSELPAEAPKASGSAIVEQRKAQAPQNFNALAQALQSLKSKN |
| Ga0244775_100027453 | F006503 | GGA | MTAEQFIVAQKHRKYWDQYVASLTMRLPPDAVGELQAILTAHGRPPTNWWCADCVKSALQYIYLQADLFLEVNQNTVTHPLNAPANPEQ |
| Ga0244775_100027455 | F006621 | GGA | LKAKDDEAQVQARMDSLMMVITTLCDCIGAVDDSNAPNAFAVKMKIVDKIDELIDKIEY |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |