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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300026892 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0114663 | Gp0115671 | Ga0209891 |
| Sample Name | Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_12-Aug-14 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 52550651 |
| Sequencing Scaffolds | 10 |
| Novel Protein Genes | 10 |
| Associated Families | 10 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → Viruses → Predicted Viral | 1 |
| All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → Caudovirales → Myoviridae → unclassified Myoviridae → Synechococcus phage S-CBM2 | 1 |
| Not Available | 7 |
| All Organisms → cellular organisms → Archaea → unclassified Archaea → archaeon | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Groundwater Microbial Communities From The Columbia River, Washington, Usa |
| Type | Environmental |
| Taxonomy | Environmental → Terrestrial → Soil → Sand → Unclassified → Sand → Groundwater Microbial Communities From The Columbia River, Washington, Usa |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | freshwater river biome → microcosm → sand |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Subsurface (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | USA: Columbia River, Washington | |||||||
| Coordinates | Lat. (o) | 46.372 | Long. (o) | -119.272 | Alt. (m) | N/A | Depth (m) | N/A | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F002909 | Metagenome | 521 | Y |
| F006069 | Metagenome / Metatranscriptome | 382 | Y |
| F011485 | Metagenome / Metatranscriptome | 290 | N |
| F014117 | Metagenome / Metatranscriptome | 265 | Y |
| F018169 | Metagenome / Metatranscriptome | 236 | Y |
| F033034 | Metagenome / Metatranscriptome | 178 | Y |
| F067478 | Metagenome / Metatranscriptome | 125 | Y |
| F089902 | Metagenome / Metatranscriptome | 108 | Y |
| F100847 | Metagenome | 102 | Y |
| F104717 | Metagenome | 100 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0209891_1003111 | All Organisms → Viruses → Predicted Viral | 1103 | Open in IMG/M |
| Ga0209891_1007180 | All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → Caudovirales → Myoviridae → unclassified Myoviridae → Synechococcus phage S-CBM2 | 737 | Open in IMG/M |
| Ga0209891_1009918 | Not Available | 621 | Open in IMG/M |
| Ga0209891_1010957 | Not Available | 590 | Open in IMG/M |
| Ga0209891_1011059 | All Organisms → cellular organisms → Archaea → unclassified Archaea → archaeon | 588 | Open in IMG/M |
| Ga0209891_1011537 | Not Available | 575 | Open in IMG/M |
| Ga0209891_1011606 | Not Available | 573 | Open in IMG/M |
| Ga0209891_1012286 | Not Available | 556 | Open in IMG/M |
| Ga0209891_1013092 | Not Available | 538 | Open in IMG/M |
| Ga0209891_1014674 | Not Available | 507 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0209891_1003111 | Ga0209891_10031112 | F006069 | MVVIETKLEGFNHKLSYDKLNYPQCSCGKCPRFYWNMMNIGARGSGKTYTIVQMIKHYEKNKIMKDNIKYKLRTHLISPTIQANEIYQSLDSLNMDKDAHENYSDKLLLSIIADIKDKKEKYEDYLLYKKYYEKVMKIPENKIEKAYDDNPDMFHLLEKYNYQHPNELEHEPPELNIIILDDLVGSDAFTRKTKSTLVNAMIKNRHMGICFALLVQSIRAVPKNIRLNCSVFQLATFKNKKMILEDIYEEISNVIDLNGFEELYDHATTKPYGSLIIDTTNGKRFLSNLDFELTLN |
| Ga0209891_1007180 | Ga0209891_10071802 | F089902 | MMTERAQKLMDAIYQERNTWADTEQKLVAAIIRKTMEHVKSMTAQKLNNLTVLDRGDMMTLSKEVENL |
| Ga0209891_1009918 | Ga0209891_10099181 | F033034 | MKVAKLTKKAQDIVNQIMSADAVDIDHGRVDERVYYGQMHLTGEGLECNVNVDGDIGEMIISNESLNAAVISEGTIEIDSEHIKDNPYGDMTITLYKLSKINAV |
| Ga0209891_1010957 | Ga0209891_10109571 | F104717 | AVDQSPIVWLEIVDKIVKGDRTKWDFILDMPLIEFLNAMAFYKAKTKERQKRLEDAAGKGFNPYIVACLNEML |
| Ga0209891_1011059 | Ga0209891_10110591 | F011485 | KTSGSAFAGFDIGKTYFGVDGYVGGVILPDSNSIDESHWKLGVGKALKISEKFSLRGDLQVLRHQSSILGGRNSTEIAPKIALVNPYLTPYIRGSHDFNLGQSGYIVGAERPTDVFGWFTLTPTVEYGKFTDYDVVAVKIGVSRTFFNHLQPYAEVGYYDNNFQSSKYKFASQEFSGDVVAVAGVRWNF |
| Ga0209891_1011537 | Ga0209891_10115372 | F067478 | MSQATYRGCQYNTDTAKQEYRQWYSQTHAPAHPQNRYRGVAYRPCQNWN |
| Ga0209891_1011606 | Ga0209891_10116061 | F002909 | VAQIDLSKLPDALDTYLGDASQGSLLQQIIVEWWNKKVIPPIWANLDANGTNASSKLRQSFIPGTITKSPTSINTILLAEDYWEFVEYGRKPTRGGHIEGTPYLWQSLKTWISQKGIKPAEDQTYDSLAKAIAKKIHRSGTKAQPFLEKAFTESIQMELVN |
| Ga0209891_1012286 | Ga0209891_10122861 | F014117 | MKHLHNDTTAAIATAISGSSAVLHFANTWQPLFALVLAIVGIVSGLFAIRYYAKKIDAIDGKGK |
| Ga0209891_1013092 | Ga0209891_10130921 | F100847 | MAKYINIEGNQVIDLTPDYNRPLALVDITVLNKLTELLPKGDFNSIRHNFREQIMKTINLEELVQTSEDFITFHRSVNLIREICQGEIHEVDVDKLRRGIGKFEM |
| Ga0209891_1014674 | Ga0209891_10146741 | F018169 | KSCKSNNIFAWFDFCGNPTSENINLINTATGKNVTYIFTFNTAWRMDTNVDPELRHLASLGNKAIATQLHLNLLAEKLGLTLIWSFEYVSNYIPMISVCFSNDVNVIADKSLNIMSVNESKKSKLTKHTLNVITKAVTVKRDLSAVYVDVKAKMDEKAICAKHNVSVN |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |