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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 | 3300006004 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0114663 | Gp0115675 | Ga0073911 |
| Sample Name | Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry- GW-RW metaG T4_22-July-14 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 95813128 |
| Sequencing Scaffolds | 4 |
| Novel Protein Genes | 7 |
| Associated Families | 7 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| Not Available | 3 |
| All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage | 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? |
|---|---|---|---|
| F003847 | Metagenome / Metatranscriptome | 465 | Y |
| F006546 | Metagenome / Metatranscriptome | 370 | Y |
| F019929 | Metagenome / Metatranscriptome | 227 | Y |
| F025937 | Metagenome / Metatranscriptome | 199 | Y |
| F047007 | Metagenome / Metatranscriptome | 150 | Y |
| F098697 | Metagenome | 103 | Y |
| F104469 | Metagenome / Metatranscriptome | 100 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0073911_1004852 | Not Available | 1041 | Open in IMG/M |
| Ga0073911_1011936 | Not Available | 647 | Open in IMG/M |
| Ga0073911_1018934 | All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage | 523 | Open in IMG/M |
| Ga0073911_1020212 | Not Available | 508 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0073911_1004852 | Ga0073911_10048521 | F003847 | TRRENNSRIDYDYKVGGKVLVRKDGILRKTESRYDSEPWTITSVHTNGTIRVERGSKSEILNIRRVTPFFE* |
| Ga0073911_1007274 | Ga0073911_10072741 | F025937 | SKATSAFPFMVALGEICEFVDREGNRCDNGQIFDPIGGGYRTCGSCSGAGVKSRFSPTGMLLVKPKTSMSEGDSGLSGDYMKFVSPPMDTLTFLRNEINTQMDKSRSVLHLPSSDASGTIGEASTATGSLNKMRALYAFVKPISDQLFGMYEFMLNTIGQMRYGEYFGGVTLVYPTSFDISTPSDYLAVISEGITAGVPPAVTYANVYNYIKAINYTDDESAAVYELIMNADELLLMGQADIVARLGLGTIEKWQDVLHQSAPQLVMELVRNFIPN |
| Ga0073911_1011936 | Ga0073911_10119361 | F098697 | SSELLSLILIDEYYLCNLDMPTHEVPQALQDFIKHRQHLKDKDSAPAVKKKLGLTDHKGKAELEQGIQGIIDKKPSRKVVRDFFKERIKELNAAKMK* |
| Ga0073911_1011936 | Ga0073911_10119362 | F047007 | MPKTTKHLDNDNKATKATGESKSGNLMDGIVAGLPKRVNPAIVDGVVRGCPKGVRGSAVSSVHASATKNEKGAFGSGNFPEGKL* |
| Ga0073911_1018934 | Ga0073911_10189342 | F019929 | MISYQALINEIIAFYDAHLQVKKVGSDFKEQLFNFATKDEKYPIVYIVPIDAIPTDNTNDFTLEIYCFDIIQKDRANINVILSDC |
| Ga0073911_1020212 | Ga0073911_10202121 | F006546 | MKWKYIGNRTGDAAKGEQYIVEADELTEVHMKSLPYPQYVKVYVVQPPSPRNNWSKNQVGDIIKICNPYYEMATYSHPGFVPVKE* |
| Ga0073911_1020448 | Ga0073911_10204481 | F104469 | ALHNAEQMLPHLEPIELPEPLPNLKTMNVICYDFVPQLLSILQNKEMMSANNLVLDPNNPLAMYKPHDSRLSEALSGSVYRDMYRRLVSNPSKQLLCPLICYTDGTQVDSLSRFGVEPFLFTPAVLTHAARCKADAWQPFGYVQHSNSNLRSDKRKLSSSGKAQNYHA |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |