| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300004568 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0114290 | Gp0111160 | Ga0066496 |
| Sample Name | Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 10_HOW4 (Metagenome Metatranscriptome) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 18031158 |
| Sequencing Scaffolds | 11 |
| Novel Protein Genes | 11 |
| Associated Families | 8 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| Not Available | 6 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei | 2 |
| All Organisms → cellular organisms → Bacteria | 1 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila | 1 |
| All Organisms → cellular organisms → Eukaryota → Haptista → Haptophyta → Prymnesiophyceae → Coccolithales → Coccolithaceae → Coccolithus → Coccolithus braarudii | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Freshwater Sediment Methanotrophic Microbial Communities From Lake Washington Under Simulated Oxygen Tension |
| Type | Environmental |
| Taxonomy | Environmental → Aquatic → Freshwater → Sediment → Unclassified → Freshwater Sediment → Freshwater Sediment Methanotrophic Microbial Communities From Lake Washington Under Simulated Oxygen Tension |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | freshwater lake biome → freshwater lake → lake sediment |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Sediment (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | USA: Lake Washington, Seattle, Washington | |||||||
| Coordinates | Lat. (o) | 48.3807 | Long. (o) | -122.1599 | Alt. (m) | N/A | Depth (m) | N/A | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001633 | Metagenome / Metatranscriptome | 660 | Y |
| F001904 | Metagenome / Metatranscriptome | 619 | Y |
| F014145 | Metagenome / Metatranscriptome | 265 | Y |
| F024800 | Metagenome / Metatranscriptome | 204 | Y |
| F037503 | Metagenome / Metatranscriptome | 168 | Y |
| F053640 | Metagenome / Metatranscriptome | 141 | Y |
| F082737 | Metagenome / Metatranscriptome | 113 | Y |
| F094695 | Metagenome / Metatranscriptome | 105 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0066496_102822 | Not Available | 524 | Open in IMG/M |
| Ga0066496_104290 | Not Available | 544 | Open in IMG/M |
| Ga0066496_107504 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei | 548 | Open in IMG/M |
| Ga0066496_107914 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei | 767 | Open in IMG/M |
| Ga0066496_109999 | All Organisms → cellular organisms → Bacteria | 1222 | Open in IMG/M |
| Ga0066496_112443 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila | 788 | Open in IMG/M |
| Ga0066496_113260 | Not Available | 563 | Open in IMG/M |
| Ga0066496_134478 | Not Available | 914 | Open in IMG/M |
| Ga0066496_141440 | All Organisms → cellular organisms → Eukaryota → Haptista → Haptophyta → Prymnesiophyceae → Coccolithales → Coccolithaceae → Coccolithus → Coccolithus braarudii | 1087 | Open in IMG/M |
| Ga0066496_144209 | Not Available | 713 | Open in IMG/M |
| Ga0066496_145631 | Not Available | 529 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0066496_102822 | Ga0066496_1028221 | F053640 | GIIPGDRGKVGGSWCRHPLPKAKAGERHISPVPLAGVVSGQFTHESGTERQGAIRNRVEPSQAHGRFRPVCRRSYPRGFWLLLRRPERSHGSRRANPAKRPHSQHEGGAQGSRDGGERADLAKSVKPPQWGGVKNHVTPLQKRKQP* |
| Ga0066496_104290 | Ga0066496_1042901 | F082737 | SK*PSLQLAPQPACQV*ACHIQHAGRCPRLAPRPRCFSVGASMLGGPPASLPVRSQNLETDFHSPTKTNLLPDRRGGVRVPALPLQLCGTLAVSPVRSDLHPRPVSRTAWDFYDQNPLLPDPAPLLPASLNRRSPLGFFAPPDQSARSRWPTGNLLSATPDLPSLPTGGRIRYQHQRIIV |
| Ga0066496_107504 | Ga0066496_1075041 | F001633 | TRLGALAFAGGVLPDATLRGMRMSRSHGGTVLTVAGRDLSSEASAPGSEIPCREDHAGRGADTPAIFIVSRPHPYHGDGTGFWPVVGPALRV* |
| Ga0066496_107914 | Ga0066496_1079141 | F001633 | VGVRHALFPDGTRLGALAFAGGVLPDATLRGMRMFRSHGGTVLTVTGRDLSSEASAPGSATPCRERHARRGADTPAIFIVSRRHRYHGDGTSFWLAVGPALRV* |
| Ga0066496_109999 | Ga0066496_1099991 | F037503 | LSVIEVELLIGLGGFTAYQILTNSEYYNIYSGVSPWVLRSVGERERTQTNS* |
| Ga0066496_112443 | Ga0066496_1124432 | F001633 | PGGTRLGALAFAGGVLPDATLRGMRMFRSHGGTVLTVTGRDLLSEASSPGSDAPCRERRAGRGADTPAIFIVSRLHPYHGDGTSFWPAVGPALRV* |
| Ga0066496_113260 | Ga0066496_1132602 | F001633 | RHALFPGGTRLGALAFAGCVLPDATLRGMRMFRSHGGTVLTVAGRDLLSEASSPSSVAPAGSGTPDVVRTRLQSYFASARYHGDGASLWLAVGPALRV* |
| Ga0066496_134478 | Ga0066496_1344781 | F094695 | VMPSCSPLQRCQLLDGGISVCSVRDPCFRETWDDVQRFSDESIGSSWVQPSTVRRSPFPVASFRDSLSAVVRRFSRPRHSSLRLTCLLEALPPINRPRMRTREHLSYGFVPYSAQQKQASVSPGASNLRHCPSSGFLTLSTSCSACNPDQFVSPGLRSWGSTKSVYSPPSFDEGRVRRAWVSSPKLSPFP* |
| Ga0066496_141440 | Ga0066496_1414401 | F001904 | MRTSFILCLLAALAFAAMVSAETDFMAAVAEVEGDCHPECRWQCDDPVCPAVCHPVCERPKCQIHCEETECAKCKIHCDKPQCNVRCPKDLCEKKDCPKCETVCSPANCRTQCEAPNAVCTPMCEATKCDWKCKKPITCPKPKCELVCERPACDTRARKTGTKGGCCSCAVQANLAATIRAANSLMEESSEVSAMMPSFMEVMHSIKASSQEGKGMCCKCAA* |
| Ga0066496_144209 | Ga0066496_1442091 | F024800 | VARGQRTAKSGGRPRADGRDAETELRTCLNLVRRPVAQPSAQAGQEASLEIQRARAVGRPCYEAERTPLAVENSVGKPAA |
| Ga0066496_145631 | Ga0066496_1456311 | F014145 | DFQPGSLPACTAWSTANKSAGRFASPLPVGRFLQPPDQCFLARRLPPLARNRSLVTAFRSPTTAAASRRPPFRGQSSQPATSLPSKFASVPVRPFGSTTASRFAPVAAVSLPLARCTSTTRFSLPRLRSPLPSGTFTSLGIKAFNRVCRLPVHLTNPPDFLSLPAARPDESWGCGS |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |