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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_10000839 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) | 37366 |
| Total Scaffold Genes | 39 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 7 (17.95%) |
| Novel Protein Genes | 9 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (44.44%) |
| Associated Families | 9 |
| 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? |
|---|---|---|---|
| F003038 | Metagenome / Metatranscriptome | 511 | Y |
| F004953 | Metagenome / Metatranscriptome | 417 | Y |
| F019119 | Metagenome / Metatranscriptome | 231 | N |
| F032245 | Metagenome / Metatranscriptome | 180 | Y |
| F044374 | Metagenome / Metatranscriptome | 154 | Y |
| F065559 | Metagenome / Metatranscriptome | 127 | Y |
| F067648 | Metagenome / Metatranscriptome | 125 | N |
| F077197 | Metagenome / Metatranscriptome | 117 | N |
| F078606 | Metagenome / Metatranscriptome | 116 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0244775_1000083910 | F032245 | N/A | MGEIFFKISQMGLTPNMFYVLYCMHNKIVPDKSVNTSLEVAKLLSGNYLTESLELSGNSLKFIQEIDGFFKKSKKKTSKDLMGDSFQDNLKLYNEIFPKGKLPSGVPARVNIKGLENAFRWFFENFTYSWETVLKATEKYVDEYSMNRYNYMRNSQYFVRKQNTDKTWDSTLATYCDMIDADDYEEPNYFKENIV |
| Ga0244775_1000083911 | F078606 | GAG | MIRLKLFFVALTGSLVSWLLVYTLLVKMNFVQFLAIEFIVGLSHYIYNDVKSKLTT |
| Ga0244775_1000083913 | F044374 | N/A | MSRKEKEKEFFAHHMDKFRKAQIADPFFTIKTAFFQKGKFGRQVQLFEGELKRGEDIYIEFIDIIRDNNGKETGMEPAFEDRPLFKYKHNPYFAEEYDVKEGTNSMGENYFAYTIPLSELMVIMPDGSEITQNLYEKRKAEAPKEQVSLSVFPDFEDEFIPKLKDVSLDAEESASDILMRIAKDFEKLAQTLK |
| Ga0244775_1000083915 | F003038 | N/A | MALSTTDLGTAGSGLPKTITPGNHVLKINSIELEEFKFIDGAYHLMMHVETQPIEGFEGFMIDKDDESKGRYAGQIGRVKASQYAFADGETKSGIKIQRDRSILIFLRTLAHTMGLDSWFLEQDGQHETIEDFVKAFNKTADFRGKFLEFCVAGKEYEGKTGYTNYDMWLPKAEGKKYAFGAIEAGAVISFDEAKHLKKLEVKEVKSFGDDDDVFHKPKTSSDFSLD |
| Ga0244775_1000083919 | F065559 | AGAAG | MPIFLAGFTKSNSMKEIDMIGTLVRLADLGITGIKVTYEGSGDSGAIENIVYTAEKLRESEEDAFEDLNDIDVWGKDVWELRDLDSGLHSDIENFVEDKLLQDIEDWWNNDGGYGTVCILIPSGKYNIVNDVRITQVETYYHEGSLIEKTL |
| Ga0244775_100008392 | F019119 | N/A | MTDSFLGTQFVIYFDRKMEKKIMDEMLALSAQIAKEHYELTDSVDRNLNYLWYMYHKGSKVGTFRPFVYMAELQLLKRMGYINDTEIKNMIAMLESSDEENLHMVTLSIKSFRDLRVQEHGEYSKVNKTYAKIAKDYPHEILNHEVFMKTMSPANG |
| Ga0244775_1000083921 | F067648 | N/A | MTRDELKNLINMFQSSDTENHVVAFHAIENSTLDNNELVLLYKFSGQPFAKWKHEIPKTAQRIADVIGDEAIALSSARVLGIITNNKAAKHVIETFLEFFIRDLTSMLGSIGYPMDKVDINVKIRDDGQSTES |
| Ga0244775_1000083927 | F004953 | GAG | MMLVQATWQESQTFRMIPIAESCPYVECIFDPKTKVFVIISKIKRTSLQMLPKLDEYGQPITGAKGHKEERHKLEVFQEFYIEDKEAIKKLIELFAVNKDFDYISFMNS |
| Ga0244775_100008395 | F077197 | AGAAGG | MFLPIEFKDEQGPYIEHLNVTHITRISFINPRNPDAGSKIHLRTGEVLKTTMPFDLLSKEIDEAWESGSILILSAMLSEKAKLMKQSDLQNEGIEELDPLSEA |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |