 |
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_10013945 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) | 7516 |
| Total Scaffold Genes | 19 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 17 (89.47%) |
| Novel Protein Genes | 11 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 11 (100.00%) |
| Associated Families | 11 |
| 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 |
| F000714 | Metagenome / Metatranscriptome | 924 | Y |
| F000868 | Metagenome / Metatranscriptome | 853 | Y |
| F001019 | Metagenome / Metatranscriptome | 804 | Y |
| F001043 | Metagenome / Metatranscriptome | 794 | Y |
| F001125 | Metagenome / Metatranscriptome | 769 | Y |
| F009685 | Metagenome / Metatranscriptome | 314 | Y |
| F017829 | Metagenome / Metatranscriptome | 238 | Y |
| F022414 | Metagenome / Metatranscriptome | 214 | Y |
| F038241 | Metagenome / Metatranscriptome | 166 | Y |
| F047059 | Metagenome / Metatranscriptome | 150 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0244775_1001394510 | F000868 | AGGCGG | MSFLENENQMVIDAIYSDIGEALVEDWVNSNLDEGQLFADFRFAEMSGDNYIKGRFNLFYDMKPGDQYYIEWNEEL |
| Ga0244775_1001394512 | F001125 | GGCGG | MGDRANFGFKDSKGDTLYLYGHWAGHRMLQNLADAVSAAEPRWGDHSYATRICISQLINEEWSSETGWGLYINQLGDNEHKVPVINWAAKTFTLFEEDLSTEVFSTSLEAFVKKYSSQPSMV |
| Ga0244775_1001394514 | F001043 | AGGAG | MSDYKDGFEDGYKFAREEMMEKLAEIDIADIDTWILDRLCEMIEGGKL |
| Ga0244775_1001394516 | F000714 | GAGG | MEETTTQAVTVPDTYNSNLLVTYKVIRGYSDAEYATDKVASIEWDLHNGRQSQKTVGVLNSKIDTVKDIIGEAYADSDDQETLRAIAEALGIDLTREVEWSATIEVSGTITLDLLADSDTDVEQEIYDNLYVDSQNGQIEIVDTEVTNVREN |
| Ga0244775_1001394518 | F017829 | AGG | MANRYRVEIYDANKLNDVTIYSEQGVDKEYLTELVFSNLNKFSGKINAYVFDNVKKKKTTAMFLDESIVNFNKQMLSKASRIEFGS |
| Ga0244775_100139452 | F022414 | AGGCGG | MKTPEIKVAEQLTNLMDDHWFNPTMFGRYLAEQPLYTIDRVMEMVVSIISEQAKTYVLHRTKGETTEGLLLANELNECIKAYQEHTVISNLKLPKPTTYNIKRDVKVNPRIFGYTDEDKNPFDQV |
| Ga0244775_100139454 | F009685 | AGGAGG | MKMSDQYIDEVLNRAQKLLWGGSETENIEAHNLISKLIKDRVEQVSI |
| Ga0244775_100139456 | F001019 | AGGA | MSYEPSLEILEMEYSCSPGGVDLFEVYDKTDIPLSVPIYETESLTDAVLYCYNLGKDFTVKTLAEWNERELAYEA |
| Ga0244775_100139457 | F000263 | GAGG | MNAEDIGLPPHLQRMVNADVPGIDIMHGELKNLMLIAEQDLKDALEQEERSEEAMDSMVRTECEGRLDTLVELYKLTYDLSFAIGVREENKKDGHL |
| Ga0244775_100139458 | F047059 | GAGG | LTKSSAFIEYIKLHKLSLEQDLEDARNNIPLDEDEYFESDAFYMGAIDATEHLLSVAIGIMNDNERIY |
| Ga0244775_100139459 | F038241 | GAGG | MLGYTKDDIDQMSNSIHDAKLFYIMKSDVEQVDKDPLVEGLLKANDFLQGLWAEGYFD |
| ⦗Top⦘ |
|
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |