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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_10021958 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) | 5796 |
| Total Scaffold Genes | 17 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 14 (82.35%) |
| Novel Protein Genes | 9 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 8 (88.89%) |
| Associated Families | 9 |
| Taxonomy | |
|---|---|
| All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage | (Source: UniRef50) |
| 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? |
|---|---|---|---|
| F000263 | Metagenome / Metatranscriptome | 1424 | Y |
| F000311 | Metagenome / Metatranscriptome | 1326 | Y |
| F000714 | Metagenome / Metatranscriptome | 924 | Y |
| F000852 | Metagenome / Metatranscriptome | 860 | Y |
| F000868 | Metagenome / Metatranscriptome | 853 | Y |
| F001125 | Metagenome / Metatranscriptome | 769 | Y |
| F013414 | Metagenome / Metatranscriptome | 271 | Y |
| F033433 | Metagenome / Metatranscriptome | 177 | Y |
| F038241 | Metagenome / Metatranscriptome | 166 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0244775_1002195810 | F038241 | AGGAGG | MLGYTKEDLDQMINAVHDAKLFYILNSGVDYVDKDLLVDALLKTNDFLQGLWAEGYFD |
| Ga0244775_1002195812 | F000263 | AGG | MTPEDIGLPPHLQRLVNYDINGLDIMHGELKNLMLIWEKELEKAQEVEDESGEAMDSMERKYCEGFLDSLVALYNLTYQLSFQIGVREENKKDGH |
| Ga0244775_1002195813 | F033433 | AGGA | MYTKPSLEILEVNYSCSPGGVDEFEVYSTDERDLLDYPLYSSESLAKAVEYCYQLGKDFTVRTLAEWEERELTYEASR |
| Ga0244775_1002195816 | F000852 | AGGA | MTTKREYLKQQGITVGVRGRFSGAAKVALQEAAIKGVTFTDEKANKAK |
| Ga0244775_1002195817 | F013414 | AGGCGG | MSKTPEQKVAEQLTNLTEDHWFNAASLARYLTDQPYYTTDRIMELVAQLIRWGGKRHEDELTPGGIYESNTSSEGLFLAHELNKTLNKLIRTYEWDNLKLPVDPQKVIAKLPKVEEQNYRYSWIHDTDNRTKVTIDHPFL |
| Ga0244775_100219583 | F000714 | GAGG | METTTIGSDALHSPEVAYNPDLLVTYKVIKGFSDAEYTTSKVTSLEWDLHNGRQSQKTVGVLQSKINHAKDIIHEAYVDSDDQDTLRAIAEALDIQLTKTIEFTATIEVSGTVEVDLLEDYELEDDIADNLYVDSQSGRIEIGDIEVCHVREA |
| Ga0244775_100219584 | F000311 | N/A | MYFELTAPDQVAFARATWDAELIGLDPMTIAPLTFNIGTGSIEKVSRIRDKYNLTESYVSDYEPTGYTGR |
| Ga0244775_100219587 | F001125 | GGCGG | MGDRANFGFKQSDGNTIFLYGHWAGHDMLANLAEAVSAAEPRWQDESYATRIAISNLIGEDWAHETGWGLSVDRILDNEHKIPVINWTAKTFTLFEEDLTTVVFSLSLAEFVNKYSRLVM |
| Ga0244775_100219589 | F000868 | GAGG | MSDPHGTIGNYRKGGSMSFLENENQMVIDATYQEIGEMLVEDWVNSNLDEGQLFADYRFAEMSDSNYLKGRFNLFYDLKEGDQYYLEWDEEA |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |