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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 | 3300023014 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0132900 | Gp0272161 | Ga0233358 |
| Sample Name | Soil microbial communities from Shasta-Trinity National Forest, California, United States - GEON-P29 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 33731427 |
| Sequencing Scaffolds | 9 |
| Novel Protein Genes | 10 |
| Associated Families | 10 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Proteobacteria | 1 |
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Agaricomycotina → Agaricomycetes → Agaricomycetes incertae sedis → Polyporales → Meruliaceae → Phlebia → Phlebia radiata | 1 |
| All Organisms → cellular organisms → Bacteria | 2 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia | 1 |
| Not Available | 1 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Soil And Plant Litter Microbial Communities From Temperate Forests In California, United States |
| Type | Environmental |
| Taxonomy | Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Soil And Plant Litter Microbial Communities From Temperate Forests In California, United States |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | forest biome → solid layer → forest soil |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Soil (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | USA: California | |||||||
| Coordinates | Lat. (o) | 40.5452 | Long. (o) | -123.5105 | Alt. (m) | N/A | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F002784 | Metagenome / Metatranscriptome | 530 | Y |
| F009027 | Metagenome / Metatranscriptome | 324 | N |
| F014301 | Metagenome / Metatranscriptome | 264 | N |
| F023941 | Metagenome / Metatranscriptome | 208 | Y |
| F033751 | Metagenome / Metatranscriptome | 176 | Y |
| F034612 | Metagenome / Metatranscriptome | 174 | Y |
| F037848 | Metagenome | 167 | Y |
| F038179 | Metagenome | 166 | Y |
| F050386 | Metagenome / Metatranscriptome | 145 | Y |
| F065019 | Metagenome | 128 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0233358_100048 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 3209 | Open in IMG/M |
| Ga0233358_100440 | All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Agaricomycotina → Agaricomycetes → Agaricomycetes incertae sedis → Polyporales → Meruliaceae → Phlebia → Phlebia radiata | 1310 | Open in IMG/M |
| Ga0233358_102087 | All Organisms → cellular organisms → Bacteria | 797 | Open in IMG/M |
| Ga0233358_102160 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 789 | Open in IMG/M |
| Ga0233358_103283 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 694 | Open in IMG/M |
| Ga0233358_105027 | All Organisms → cellular organisms → Bacteria | 611 | Open in IMG/M |
| Ga0233358_105302 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia | 601 | Open in IMG/M |
| Ga0233358_105317 | Not Available | 601 | Open in IMG/M |
| Ga0233358_109430 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 505 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0233358_100048 | Ga0233358_1000483 | F014301 | VQLTLVLLELPAPPAMPGVRLDPEARAKAIEILARMIAKTLPTSTQPQNEVADE |
| Ga0233358_100440 | Ga0233358_1004401 | F050386 | SRKSYQWKRISEVHKLMVDIQTAHAKLGSQDGNSREHEIKVPNDY |
| Ga0233358_102087 | Ga0233358_1020872 | F034612 | MNTPEPILDYLRNQIPAYPFDPKLDEAFVHELIEDFHDLDILEETKTFRWYHNNRPADRFKNVRVGLRRWISNSWARKTD |
| Ga0233358_102160 | Ga0233358_1021601 | F037848 | MKKIAAMLRTGPVLVGEFRGGKSEVAKRFDKTDKNAPPIEFGMFKFTLELLADGSPVMVSVFLDRGVNAEQFATTVTLKRGDIVAIAVSKLELIKGVRRASCGATNFVVLDKAEIDQLRG |
| Ga0233358_103283 | Ga0233358_1032831 | F023941 | APDSPLEESGFELVWGFSCQVVVLGFAESSLFGAGKPFFIPSPAIRFAERAEGVKGPKR |
| Ga0233358_105027 | Ga0233358_1050272 | F009027 | IRVIDAVHPLFGQPLEVSPSGLIRRIGWIRVVLPDGRHRWVPQKATDLDVSACEARPNRDLPLVSVRTLIPLAEYVRARLSALGERFDETSGHTADPAVRAGIAGSTADLGAEIVADDDADNTTTAGEAGGTATAVNAGRSRRRRFDRGASR |
| Ga0233358_105302 | Ga0233358_1053021 | F065019 | MPRHKPPPDLIKFLKPYDRAVQQLALGLRALVLEEMAPCHENIYDAYSAVAIGYGPTD |
| Ga0233358_105317 | Ga0233358_1053172 | F002784 | MNEFTDKNEQAFLDACKAISVEPKATVNMQKERYLVSEFLKNPVSWLETESLYHSYTTRGEAKDVAHGIDRMISEGAPVGQSK |
| Ga0233358_108596 | Ga0233358_1085962 | F033751 | STLQSLTTGKEVLILISTPYWYGVETHEGQRGWVMRDELEQP |
| Ga0233358_109430 | Ga0233358_1094301 | F038179 | TTPTYQFSKLTRVGIECMNHKKQERHQAQIPEYQAEGWRTDDGGLTPEERVFRRRHRSNPDVKDQSLILELLGRINYKIIKGDRVYVEVGGVVYKTLYGGYWRSVFTGIEHHLLKCEQVSGSIWTDGSAAAAVVDLPIAYSKEGWTAKGHSLSFMLCRD |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |