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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 | 3300003703 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0103008 | Gp0088351 | Ga0008091 |
| Sample Name | Tropical rainforest soil microbial communities from the Amazon Forest, Brazil, analyzing deforestation - Metatranscriptome P72I A001 (Metagenome Metatranscriptome) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 3743723 |
| Sequencing Scaffolds | 10 |
| Novel Protein Genes | 12 |
| Associated Families | 11 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| Not Available | 9 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Tropical Rainforest Soil Microbial Communities From The Amazon Forest, Brazil, For Analyzing Deforestation At Different Spatial Scales |
| Type | Environmental |
| Taxonomy | Environmental → Terrestrial → Soil → Unclassified → Tropical Rainforest → Tropical Rainforest Soil → Tropical Rainforest Soil Microbial Communities From The Amazon Forest, Brazil, For Analyzing Deforestation At Different Spatial Scales |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | forest biome → tropical forest → forest soil |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Soil (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | Amazon Forest, Brazil | |||||||
| Coordinates | Lat. (o) | -10.0 | Long. (o) | -62.0 | Alt. (m) | N/A | Depth (m) | N/A | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001758 | Metagenome / Metatranscriptome | 640 | Y |
| F001975 | Metagenome / Metatranscriptome | 609 | Y |
| F006338 | Metagenome / Metatranscriptome | 375 | Y |
| F023129 | Metagenome / Metatranscriptome | 211 | Y |
| F035644 | Metagenome / Metatranscriptome | 171 | Y |
| F044324 | Metagenome / Metatranscriptome | 154 | Y |
| F045561 | Metagenome / Metatranscriptome | 152 | Y |
| F063173 | Metagenome / Metatranscriptome | 130 | Y |
| F080954 | Metagenome / Metatranscriptome | 114 | Y |
| F081396 | Metagenome / Metatranscriptome | 114 | Y |
| F102643 | Metagenome / Metatranscriptome | 101 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0008091_100139 | Not Available | 756 | Open in IMG/M |
| Ga0008091_100414 | Not Available | 861 | Open in IMG/M |
| Ga0008091_100433 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia | 670 | Open in IMG/M |
| Ga0008091_100556 | Not Available | 948 | Open in IMG/M |
| Ga0008091_100625 | Not Available | 695 | Open in IMG/M |
| Ga0008091_100928 | Not Available | 1373 | Open in IMG/M |
| Ga0008091_101528 | Not Available | 818 | Open in IMG/M |
| Ga0008091_102604 | Not Available | 512 | Open in IMG/M |
| Ga0008091_103247 | Not Available | 664 | Open in IMG/M |
| Ga0008091_106501 | Not Available | 605 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0008091_100139 | Ga0008091_1001391 | F080954 | SDLERTFPATQEDEDSVEVEDSLRGASRGMQDSRETGTPIPGRAGDAKFGGRWSFVAG* |
| Ga0008091_100414 | Ga0008091_1004141 | F081396 | GKERGLVADSKELEAGQEPRAGRSISGENDQASDRETLKITGEHDCDELDGRSGAERMMTSSAGSGERHLEEVKPRRGSSPIGG* |
| Ga0008091_100433 | Ga0008091_1004331 | F001975 | MASTTQQELQDQFLSLVSKSQEIALDAIKSIVDTVSTITPKIPTVDLPFADRLPKPHDVVAGGYDFAEKLLSSQRTFADEVVKATAPLLPGNSDTK* |
| Ga0008091_100556 | Ga0008091_1005561 | F045561 | ARWVVGNVDLEPDFRKEAGGSGQEARAGRQPESRPANPCIGETPGASREGFFAVKAGGGGDVKAFPRCAGRKPGGAEAQEGRGSIGT* |
| Ga0008091_100625 | Ga0008091_1006252 | F023129 | MVKTLPLACEMKSNLREKRRDPWHGANAPSKAVADLTLSGEDADIESQTCLCLVRRPVAQPSVQAS* |
| Ga0008091_100928 | Ga0008091_1009281 | F035644 | MESSASPEDLALSEYVISDYLTESERDAEADIPVPDRLLPKREYRRLVEALRLSQRIGLLIWLNRQGLLTLGGKERLLYLQSKASFEALEAGLRFARRLSEEKKLQSDFQHQMRELNRRPQSKHFRQTGTRRIGVGYRDKGMLPEQSLRARRMAWEESFLPTESIPEELLNVLQKYLPHCLTEDGEWVDLSVFPGTFGSEDNSEMKTLLHPL* |
| Ga0008091_101528 | Ga0008091_1015281 | F001758 | VTGEKPSQAGWLGSSESGSKGLKGEAEFTSSSGSVRALSVNAKKGLREEER* |
| Ga0008091_101528 | Ga0008091_1015283 | F006338 | MLSGPATRPKTPLAVENSVGKLAAAEMWRQMPARERELGELP |
| Ga0008091_101779 | Ga0008091_1017792 | F102643 | MGGRSHPKLNILGRPIAKKYSDGKVKRTLKRRSKVLETVKRETDGASNYPMGIQTIHFYSALQWFDRSTECTVRLLLRYYGRYLVCMFVNIKYEKGIIHGGR* |
| Ga0008091_102604 | Ga0008091_1026041 | F063173 | PVNSQVAFRLQFSGIVFNIADLSKGFHGPCLDRVSFPARPLTLFRLSAFFIWLIPFLFRNRQSRPAVLIHSSNRLPSGNCDSLEFETSSSYLTESGTVSNRSSFLSPFFACTDGARTPPEELVNSASPFVSFDPLSEEPGQPA* |
| Ga0008091_103247 | Ga0008091_1032471 | F080954 | RTFPATQEDEDSMEVGDSLRGASRGMQDSREVGTPIPSAAGDAKFGGSRSFVAGWASAAATS* |
| Ga0008091_106501 | Ga0008091_1065011 | F044324 | KARKLEREDHLGIDGRAGDGDTLWIIAAGHTQHRREKIVNGDDGNDVVEVIRAEPEGAGTHEGIRALVGGNTTADVADPRLEQSFEVDASQAGVGSNTDRKAAPTAREQRVSTRDRGWPGGGSP* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |