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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 | 3300023029 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0132900 | Gp0272151 | Ga0233348 |
| Sample Name | Leaf litter microbial communities from Shasta-Trinity National Forest, California, United States - GEON-DECOMP-297 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 79727771 |
| Sequencing Scaffolds | 10 |
| Novel Protein Genes | 11 |
| Associated Families | 4 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| Not Available | 9 |
| All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Soil And Plant Litter Microbial Communities From Temperate Forests In California, United States |
| Type | Environmental |
| Taxonomy | Environmental → Terrestrial → Plant Litter → Unclassified → Unclassified → Leaf Litter → Soil And Plant Litter Microbial Communities From Temperate Forests In California, United States |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | forest biome → litter layer → plant litter |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Soil (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | USA: California | |||||||
| Coordinates | Lat. (o) | 40.2526 | Long. (o) | -123.026 | Alt. (m) | N/A | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F011735 | Metagenome / Metatranscriptome | 287 | Y |
| F015054 | Metagenome | 257 | Y |
| F038985 | Metagenome / Metatranscriptome | 164 | Y |
| F091248 | Metagenome | 107 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0233348_1003574 | Not Available | 1295 | Open in IMG/M |
| Ga0233348_1005841 | Not Available | 1021 | Open in IMG/M |
| Ga0233348_1010248 | Not Available | 769 | Open in IMG/M |
| Ga0233348_1015489 | Not Available | 626 | Open in IMG/M |
| Ga0233348_1015892 | Not Available | 617 | Open in IMG/M |
| Ga0233348_1016339 | All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta | 610 | Open in IMG/M |
| Ga0233348_1018654 | Not Available | 571 | Open in IMG/M |
| Ga0233348_1018702 | Not Available | 570 | Open in IMG/M |
| Ga0233348_1018743 | Not Available | 570 | Open in IMG/M |
| Ga0233348_1023594 | Not Available | 509 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0233348_1003574 | Ga0233348_10035742 | F015054 | ATNFISWKSRVLMLEENDLLRLVNEKVPEPDIEEDKSHWRKSDARERRILVDSVRDRLVPQISQKKTTRKMFRTLKE |
| Ga0233348_1005841 | Ga0233348_10058411 | F015054 | MIGMKVEDHLDGATNFISWKSRVLILGENGLLKLVNEKVLEQDVEEDKSHWRKSDARARRILVNSVRDHLVPQILQTKATMKMFRTLKE |
| Ga0233348_1010248 | Ga0233348_10102481 | F015054 | MIGMKVEDNLDGATNFIFWKSIVLILEENDLLKLANEKVPEPNVEEDKSHWRKSDARARRILVDSVNDHLVPQMSQKKTTMKMFKTLNE |
| Ga0233348_1015489 | Ga0233348_10154891 | F091248 | MSRRQKKKAPAVEEVSVPEAETKTEYIYEDTQCVTGVEPEYKWGEIHRLISRREVPDMGLEEAPIYANIEKSAIMKVATRPELFPCSEVMKWILPHTNHDTMLICNVEGQGYAAFSPGYVALAYHLPEPQVFLSNEWLDNLRMDLVETMRKMLLPGKLYRHRATEDYDTASLRAPYRFIALMLNRIFGRANGRLFKFEWIPLIFYVAT |
| Ga0233348_1015892 | Ga0233348_10158921 | F015054 | MIGMKVEDHLDGATNFISWKSRVLILEENDLLKLVNEKVLEPDAEEDKSHWRKSDAKARRLLVDLVRGHLVLPILQKKMTSKMFKTLKE |
| Ga0233348_1016339 | Ga0233348_10163391 | F011735 | MVKHVLEKGAYELVDYEGTALAEPRNGLYLKKYYAXSSAK |
| Ga0233348_1016452 | Ga0233348_10164521 | F091248 | SAIMKVATRPELFPCSEVIRWILPHTNTATMLIGNVEGQGYVAFSPGYVALAYHLPEPQIFLSDAWLDNIRMDLIETLKRMLLPGKLYRHRATGEYDTASLRAPYRFIALMLNRIFGRAHGRLFKFEWIPIMFHVATQGTVFNWASLVSSSLSSCVAAALGGESKKKSEFYMSSILVDCILCNQPFPGLKCVWDRERMPVYA |
| Ga0233348_1018654 | Ga0233348_10186541 | F038985 | FADHSMPKKRRLGRQNGSGSLGPRKLPRIVNCATIKETGKLKETVVGVQEE |
| Ga0233348_1018702 | Ga0233348_10187021 | F015054 | MKVEDYLDGATNFISWKSRVLILEEIDFLKLVNEKVPKPNAEEDKSHWRKSDARARRILVDSIRDDLVPQISQKKTTREMFKTLKE |
| Ga0233348_1018743 | Ga0233348_10187431 | F015054 | ATKFISWKSRVLLILEENDLLKLVNEKVPEPEAEEDKSHRRRSDARARRIMVDSVRDHLVPQISQKKTSRKMFKTLKE |
| Ga0233348_1023594 | Ga0233348_10235941 | F091248 | IEQSAIMKVATRPEMFPCAELMRWILPHTNHGSMLICNVGGQGYASFSPGYVSLAYHLPEPQVFLSNEWLDSLRMDLIDTMRKMLLPGKLFRHRVTEDYDTATLRPPYRFIALMLNRIFGRANGKLFKFEWIPLMFYVATEGTIFNWSGLVSSSLSSCIAAAKGGVQQR |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |