| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300029649 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0128792 | Gp0224279 | Ga0206085 |
| Sample Name | Metatranscriptome of soil microbial communities from Anza Borrego desert, Southern California, United States - S3+v_5 (Metagenome Metatranscriptome) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 31427146 |
| Sequencing Scaffolds | 11 |
| Novel Protein Genes | 12 |
| Associated Families | 11 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| Not Available | 6 |
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Spiralia → Gnathifera → Rotifera → Eurotatoria → Bdelloidea → Rotaria → Rotaria sordida | 1 |
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Nematoda → Chromadorea → Rhabditida → Rhabditina → Rhabditomorpha → Rhabditoidea → Rhabditidae → Peloderinae → Caenorhabditis → Caenorhabditis elegans | 1 |
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Panarthropoda → Arthropoda → Chelicerata → Arachnida → Acari → Acariformes → Trombidiformes → Prostigmata → Eupodina → Bdelloidea | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Propionibacteriales → Nocardioidaceae → Nocardioides | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae → environmental samples → uncultured Rubrobacteraceae bacterium | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Systems Level Insights Into Methane Cycling In Arid And Semi-Arid Ecosystems |
| Type | Environmental |
| Taxonomy | Environmental → Terrestrial → Soil → Unclassified → Desert → Soil → Systems Level Insights Into Methane Cycling In Arid And Semi-Arid Ecosystems |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | desert biome → desert → soil |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Soil (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | USA: California | |||||||
| Coordinates | Lat. (o) | 33.305 | Long. (o) | -116.2547 | Alt. (m) | N/A | Depth (m) | N/A | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000344 | Metagenome / Metatranscriptome | 1257 | Y |
| F000606 | Metagenome / Metatranscriptome | 993 | Y |
| F000680 | Metagenome / Metatranscriptome | 939 | Y |
| F001291 | Metagenome / Metatranscriptome | 729 | Y |
| F018301 | Metagenome / Metatranscriptome | 235 | Y |
| F020734 | Metagenome / Metatranscriptome | 222 | Y |
| F021791 | Metagenome / Metatranscriptome | 217 | Y |
| F030327 | Metagenome / Metatranscriptome | 185 | Y |
| F051753 | Metagenome / Metatranscriptome | 143 | Y |
| F073034 | Metagenome / Metatranscriptome | 120 | Y |
| F086426 | Metagenome / Metatranscriptome | 110 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0206085_103811 | Not Available | 827 | Open in IMG/M |
| Ga0206085_104092 | All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Spiralia → Gnathifera → Rotifera → Eurotatoria → Bdelloidea → Rotaria → Rotaria sordida | 803 | Open in IMG/M |
| Ga0206085_105068 | Not Available | 740 | Open in IMG/M |
| Ga0206085_105960 | Not Available | 696 | Open in IMG/M |
| Ga0206085_107343 | All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Nematoda → Chromadorea → Rhabditida → Rhabditina → Rhabditomorpha → Rhabditoidea → Rhabditidae → Peloderinae → Caenorhabditis → Caenorhabditis elegans | 644 | Open in IMG/M |
| Ga0206085_108421 | All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Panarthropoda → Arthropoda → Chelicerata → Arachnida → Acari → Acariformes → Trombidiformes → Prostigmata → Eupodina → Bdelloidea | 612 | Open in IMG/M |
| Ga0206085_110661 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Propionibacteriales → Nocardioidaceae → Nocardioides | 563 | Open in IMG/M |
| Ga0206085_110863 | Not Available | 559 | Open in IMG/M |
| Ga0206085_111438 | Not Available | 550 | Open in IMG/M |
| Ga0206085_113068 | Not Available | 526 | Open in IMG/M |
| Ga0206085_113653 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae → environmental samples → uncultured Rubrobacteraceae bacterium | 518 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0206085_103811 | Ga0206085_1038111 | F000606 | TMKAVLALIFFACVAGSMASDARGQFVDQLVQQGQAIAQTVLTQVQQQILTLVQQAVGQLSSLVGSIGGRLDINFNALLDQFKPVLGNLINQALVQVLGSLQGLIGGRTSIDLSSIFSGFLGEVQNAISGIGQHFLNQGLAAVLGALGSFGGSSRAIGDIFASLSQQVGNVVTAAQGALQGALANLSTLGSTILDASKPHLEQLQEQLVGHGLNVLGSISETINNLHGTVTGGR |
| Ga0206085_104092 | Ga0206085_1040921 | F000606 | IKFATFTIMKAVLALVFLACFAGSMASDARGEFLGQLAQQGQAIAQTVLLQLQQQIIQLVQQTVGQLSSLVGSLGRFDFDFNAIVDQFKPVVSGLINQVLGQVLGSLSGLIGGRAGIDLGSIFGGFLQEVQGALTGIGQHFLNQGLAAVLGGLGSLGGSRAIGDIFASLSSQIGGLVSAAQGALQGALGNLSALGASLVDASKPHWEQLQEQLVGHGLNVLGSISETVNNLHGSITGGR |
| Ga0206085_105068 | Ga0206085_1050681 | F021791 | YRIKPHVPPFGQIPANSVKFQPCDYTAQAGYLHVSFN |
| Ga0206085_105960 | Ga0206085_1059601 | F000344 | MRPKHPHAAESGVGKHTARESESVQACAAGKERVT |
| Ga0206085_107343 | Ga0206085_1073431 | F001291 | LAAPTPACIPDPASFYWKAPCDGQSFTNRVDVSSVTATQGGKPVDQQGGFDISTNIDLVAAINDKYGEVKKPLIDVGILEYSKGVSGKCEWKQVPTLGLLDNIDGCTVVQNCHLTGSPTSLEASLSVKNLAGPLYAGISTDTYYGLTMTFKDGKTPFLCVYSQDIVIKK |
| Ga0206085_108421 | Ga0206085_1084211 | F030327 | MSQNQGGNNNNADGSQHSSGIRNQPGGSTQGGTGPYQRTPANYAGGAGPSANQTITLHAQNGQTRQATTDANGAISDADRQWLADNGGAMPISQVPPQDKAIVGTGTGAAAQMGGDASQVGTKPLDTRPPGSFNPNTGGNQGGNQGGNQ |
| Ga0206085_110661 | Ga0206085_1106612 | F020734 | VSLMTEVLLVSGVALDLVGAGVLSHAHNADSIAELREEIGEEGVAVGEPDAISTHAQLLAEKRIGFLLLTVGLVLYLSGVVSKSPEDLGLMTAIGVGVVAAGVAVSVVFTKVAGGRIRDQARQAERRDEP |
| Ga0206085_110863 | Ga0206085_1108632 | F051753 | MAIGPDAGGEQLELTLGPLYHVVVDDRVSGPLSNRPTRSYRSPPQGLEVARCLAALLLDRGDELEGDGPWRRPLAGGQRHVAIV |
| Ga0206085_111438 | Ga0206085_1114381 | F073034 | MADKEQRDIATQANEQDALRQEIDEVTPEQQEWFRLAGFSRIEWQRLVYARWRHRQGLLTDYPQG |
| Ga0206085_111581 | Ga0206085_1115811 | F086426 | AKGGKARKPAANPSRPALRGVVKSCTNLASKLNGLDFQLGKAERKGLLDAFQELAEAVSRRLKIKVEVAVGVKERKSVVTKRSDRVARA |
| Ga0206085_113068 | Ga0206085_1130681 | F018301 | LARLGKLWKSDAERGLRTRHEMGRVLNRQVGPPAARKAHGMRVLELYGAELGIAPSDLNRMGWFSHLFPDFSDLRTRHPEIDSWTRFKTALPDLKPAKGGKARRPVANPSHPALGGVARSLANLTSKLNGLDIRPAGAERQKLVDALRGLAEAASRRLRINVEVAVRVKESKPV |
| Ga0206085_113653 | Ga0206085_1136531 | F000680 | LKKLMLLAALLAMLTVAAVPAIAQIGQEGEQEVESGDVDQSFSVTSEGDNSNQCAGISGVANTGNAQNQLDLIQYGSLADEFEFDEVGSNVEVSPTNSTECTQEVNQAASASG |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |