| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300000892 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0053056 | Gp0053725 | Ga0000194 |
| Sample Name | Marine sediment microbial community from Union City, CA, USA - Pond 2C Sediment 2 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 67889334 |
| Sequencing Scaffolds | 4 |
| Novel Protein Genes | 4 |
| Associated Families | 4 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Archaea | 3 |
| All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Environmental Microbial Communities From Fremont, Ca And La Paraguera, Puerto Rico |
| Type | Environmental |
| Taxonomy | Environmental → Aquatic → Marine → Unclassified → Unclassified → Enviromental → Environmental Microbial Communities From Fremont, Ca And La Paraguera, Puerto Rico |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | marine biome → pond → sediment |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Saline → Water (saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | Eden Landing Ponds, San Francisco, CA, USA | |||||||
| Coordinates | Lat. (o) | 37.569017 | Long. (o) | -122.102433 | Alt. (m) | N/A | Depth (m) | .11 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F024682 | Metagenome / Metatranscriptome | 205 | Y |
| F028081 | Metagenome / Metatranscriptome | 192 | Y |
| F038920 | Metagenome / Metatranscriptome | 165 | Y |
| F058721 | Metagenome / Metatranscriptome | 134 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| JGI1678J12821_1000360 | All Organisms → cellular organisms → Archaea | 2781 | Open in IMG/M |
| JGI1678J12821_1002711 | All Organisms → cellular organisms → Archaea | 1579 | Open in IMG/M |
| JGI1678J12821_1005353 | All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon | 1226 | Open in IMG/M |
| JGI1678J12821_1010767 | All Organisms → cellular organisms → Archaea | 905 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| JGI1678J12821_1000360 | JGI1678J12821_10003601 | F028081 | MDKEKALQKLQKTRNENEQAYLKAKAFLEGFRARGQLSKKDNEFLFLLEFVIKGFKNHGNDIITAFENQVRFTEAFNNLQAKVNDLEHDIRQLRKTLDKMYQDR* |
| JGI1678J12821_1002711 | JGI1678J12821_10027113 | F058721 | MLKTTLPCADPQCADKMRLVFQNERFLGYRCLLKPKSHNFRYDIERKRWEKIIIKTKPIIGYKKSPYDVALDEDVAIETI* |
| JGI1678J12821_1005353 | JGI1678J12821_10053533 | F024682 | LSAEDELISKLKEEIGKTVPPMFAEIAKDMMEKNKEVIINLLKDNKNLVKEVIES* |
| JGI1678J12821_1010767 | JGI1678J12821_10107672 | F038920 | LLTEILTDQQLIDLYTTPGYLVAVDYPKKEIKLHMVDCMLADPISSVGVKPSKARENKTGEFWFSESREEANSKAEEIAKNKEYTYKICPICNR* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |