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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300004139 Open in IMG/M |
| Scaffold ID | Ga0058897_11168814 Open in IMG/M |
| Source Dataset Name | Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaT HF230 (Metagenome Metatranscriptome) |
| Source Dataset Category | Metatranscriptome |
| Source Dataset Use Policy | Open |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Sequencing Status | Permanent Draft |
| Scaffold Components | |
|---|---|
| Scaffold Length (bps) | 1713 |
| Total Scaffold Genes | 3 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 1 (33.33%) |
| Novel Protein Genes | 3 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 1 (33.33%) |
| Associated Families | 3 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Archaea | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Loam → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Harvard Forest Long Term Ecological Research (Lter) Site In Petersham, Ma, For Long-Term Soil Warming Studies |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | Harvard Forest LTER, Petersham, MA, USA | |||||||
| Coordinates | Lat. (o) | 42.531427 | Long. (o) | -72.189946 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001093 | Metagenome / Metatranscriptome | 780 | Y |
| F003181 | Metagenome / Metatranscriptome | 502 | Y |
| F025944 | Metagenome / Metatranscriptome | 199 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0058897_111688141 | F003181 | N/A | MKLDQDPIGELRVLDSGYTDQVLLDTISEEVLRIKATVCNSLQDLNKLYMVDRALYTNTPGLPLYMEFTPQNIRTIKTPLIISEVKLYTVERVWGMRTLRITR* |
| Ga0058897_111688142 | F025944 | N/A | MPTYVKIIVLAQAATILSLTLVMYQVYLNDVSFQQYVISLFQSNIIADATLSIVTASVFALGTFTLLGSMGTRRASKEWSRLSEEAKAPPMPSLPVLETAERASKPRSASRRPRSRKPRADMDKLYESIRHFADDHGQESTPRVRN* |
| Ga0058897_111688143 | F001093 | AGCAGG | MAVQNKGRESWTEEESTRTSTRQSSPLKLSRVFRFIDQQTGAPQISDFPDSNPTGDTPLEIRMKHFTEIENFTFLAYTLAHELGGTAPRPIRTVTDLQVSDDEFQNFVNQAKTTSLTDEELADTVLDVGINWEHFVASTDNLLIPEHPLKIADVLMQEKIDALDIITEAFVREVNLRSIEKKTGRKT* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |