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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300024343 Open in IMG/M |
| Scaffold ID | Ga0244777_10001615 Open in IMG/M |
| Source Dataset Name | Combined assembly of estuarine microbial communities from Columbia River, Washington, USA >3um size fraction |
| 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) | 16053 |
| Total Scaffold Genes | 39 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 28 (71.79%) |
| Novel Protein Genes | 11 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 11 (100.00%) |
| Associated Families | 11 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Crocinitomicaceae → unclassified Crocinitomicaceae → Crocinitomicaceae bacterium | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | Columbia River Estuary, USA | |||||||
| 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? |
|---|---|---|---|
| F004476 | Metagenome / Metatranscriptome | 436 | Y |
| F004583 | Metagenome / Metatranscriptome | 432 | Y |
| F011390 | Metagenome | 291 | Y |
| F024112 | Metagenome | 207 | Y |
| F043397 | Metagenome | 156 | N |
| F053301 | Metagenome / Metatranscriptome | 141 | N |
| F054860 | Metagenome | 139 | N |
| F057375 | Metagenome | 136 | N |
| F076096 | Metagenome | 118 | Y |
| F095470 | Metagenome | 105 | N |
| F103253 | Metagenome | 101 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0244777_1000161513 | F011390 | AGGAG | MKIQTTNYGLCSVKKHKYQTNGNLALSLIDEDGCPVTYISTNVFPMGENEFCANYYNMGATLWNDIATSGLFEQTGEKVPSGYCEYPVCKLIVDID |
| Ga0244777_1000161516 | F095470 | GAG | MKKVMWVSDSLEPWNHSHHYEPLIEDLTGFNLTENLCSETVKYMAKRLKDTPYQRRFRSKYSIFENEYVALVEKFNTQADNNGKIEVK |
| Ga0244777_100016152 | F004476 | AGAAG | MLFSKNGFMSVDTTEAFVKQALEFGNKDVVLSVVHSDGVIDIVFSPTMDAIEAEVYHFLNDGTELKYSMPIKTLTNNNISTLHLTSAIYAYLSEAFKVADMFRSTTRQSTDYAN |
| Ga0244777_1000161521 | F103253 | AGGA | MEEKVWIYLSKTGTGFELAGTDIISGFDAFVNADGSYLIEHSYSDIKGDEHFFIYEWDKSQKKRRTIFEGYQRQNVLTGFAKNVDIPENLKLAIFKNYTFDEEDLELEKNAN |
| Ga0244777_1000161532 | F054860 | AGAAG | LNITLKNARINYQNSEETVAFNALLCIDTKPFAEVSNDGKGGENRYRPLGDSMDWIYNHALVTQFREWCSIQPPVYDRQSGNTYKYDADIHVNDCLTQYIGNQSKVAVS |
| Ga0244777_1000161534 | F053301 | AGGAGG | MTVKEVIQMLEQIAEKEGYQTECIVEIEEENYNTEAEIHTVCTNGYQDGTKKICLLGTKDNEADEE |
| Ga0244777_1000161538 | F043397 | AGGAG | MPRYDVYIPFTCSYEGEIADEDYSTIVKADNEKDAIQKALDELSSEYVVKTLNSDEITVEEIPTFPSFDEWEEKYTALNNPHAREGEQGLGEIMFDTDGDEYQTVRGFDSSKIWTVRSTEYGLMLTAGFGVVDRFGYILSEQSFTEEDKDKAFIID |
| Ga0244777_100016154 | F024112 | AGGA | MKIEDYDKERATVLNALYCSVRSAIEAENVHNNTRIEWIEDDFKVAKQKLETIEAEMRVLLGDPFAEEGAE |
| Ga0244777_100016155 | F057375 | AGG | MEQTVHFVNASDFFDAIELGSAESGEFLEQFTYGDSLTDITLVARTTFLQRLTKFIGECEDIYEKDVVMQSLKEFNFGLLGAIKHVNIEM |
| Ga0244777_100016157 | F004583 | AGGA | MKTTRNSDRLREILFATRHQIVSLKDIQMDMMRHDTKVANNIATQISALEEVYKHQLTLVNQAENAEPKRNGWFSGHIKTKEDRLANIMD |
| Ga0244777_100016158 | F076096 | AGG | MIWYDKQWENPLFWFDKMLTYSEHAMLRTMERDLPFIDFLPVDSKYLYHVLKKDVFSMTFETTVKGKRMEIAISSIGVVMTVYPVIKSTADKFQFKYKQYLGAFKKPDDFMPPIIIESDLSGEDSELFEGM |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |