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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300021180 Open in IMG/M |
| Scaffold ID | Ga0210396_10000008 Open in IMG/M |
| Source Dataset Name | Forest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-H-17-O |
| Source Dataset Category | Metagenome |
| Source Dataset Use Policy | Open |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Sequencing Status | Permanent Draft |
| Scaffold Components | |
|---|---|
| Scaffold Length (bps) | 525331 |
| Total Scaffold Genes | 452 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 344 (76.11%) |
| Novel Protein Genes | 7 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 6 (85.71%) |
| Associated Families | 7 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae | (Source: IMG/M) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Forest Soil Microbial Communities From Barre Woods Harvard Forest Lter Site, Petersham, Massachusetts, United States |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Massachusetts | |||||||
| Coordinates | Lat. (o) | 42.481016 | Long. (o) | -72.178343 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000269 | Metagenome / Metatranscriptome | 1410 | Y |
| F000323 | Metagenome / Metatranscriptome | 1300 | Y |
| F000525 | Metagenome / Metatranscriptome | 1049 | Y |
| F001355 | Metagenome / Metatranscriptome | 716 | Y |
| F004553 | Metagenome / Metatranscriptome | 433 | Y |
| F065975 | Metagenome / Metatranscriptome | 127 | Y |
| F069199 | Metagenome | 124 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0210396_10000008125 | F004553 | AGGAG | LNRRFGKTAVAALVAGALFMFAAAPLVHADDKDKCRHAIEKAEARLDHAIRDKGEHSREAEERRHDLNAERERCWTAYHGWWNGKENRWETEHNWDNDHPDNH |
| Ga0210396_10000008156 | F001355 | GGA | MDYSISKRAACCVCGLDTFRHKGWFLVVENRWLDRLKILTWHSSLAAQQDMRSVCCRQHLKTLIGHWLNQASLRLPPTYDPPLPIGSDPNLADVDLGRDAVGRLLGELAVHRESFSRVWSGSAAALESIVDALITIGDENQPHALEFHLSDQSRSTHGLSLQ |
| Ga0210396_10000008194 | F000525 | AGGA | LPTTKKFLLALILCATIACSPRDFLTRRLAADLISASDEFKSPQMFWLRQGMVSNKDFSSPESLVLQRRGWIQATEEKCPPDIDPPPCWDVVLTPLGVDTIRPLIATALPNNGPIGIQAARRELLGIAGISKAGNFADVEFTWRWVAINQVGAALYDSGVHYRSTVAFRSYDDGWRVLEKNMPSNQPLEDALRNAQPSAQ |
| Ga0210396_10000008199 | F069199 | N/A | MQKVTMPEKDKSLALREIAPADLEEVAGFIARISGSHTPLSTAVRRLAWILLENPAREPTDPFGWLLRAPSGEIAGCMCCAPQKFCFAQKTFTLMMANSFYVDDRYRGGGASIFLKYLQLGRRYPLFVSSANPTVAEMWQKLGGYPLGNSDHEVIGIQRWSPLLAENIYRQTASHRMAQCMAQFAAAFASPFLRAPRGLRCDTGEGQLLPLHTCEEAAGVCAEHHCDKITNCRDAAFLKWRYFSPVTPTARLFAFRPAADDKKFIIAVQLQNRGYKQQIRALQILDIWGEPAPKSYLSIASALAHEYRERIDMLVFRCLDQTQQQALIAHGFKFRRFAAPIAWCIDKHGLLPSKSWYFVPADGDMFL |
| Ga0210396_10000008450 | F000323 | AGGAGG | MSKLIFALLLCSSFLLGQNSNPISQGNSKDAKGQVTVQGCVGRSSGDYVLMKQNPTETLELQATNKIKLRHYLGQRVEVTGTKSPSMSTSSDAMARMGSPSPVTLTISSIKTVDKDCSERPAQ |
| Ga0210396_10000008451 | F000269 | GGA | MNSSTRRLSMCALTCSLALLLPLLCSASEQPTPKPTDLPATVIGHLALPQATGSQMLLQKEGGRHYLYVQQAGKQGFMVVDVTTPERPTLLRRTVESNQSTAGNLEMVSPDIAIAEAPERTSSTLTSSSHLTETVRILDLSDPHNPRTLETFNKVTSLLPDGGHGFIYLTNNDGLWILRYNRVSALIPAKKKQPCDSESEIMAMPPDCE |
| Ga0210396_1000000855 | F065975 | GGAGG | MRSAALIVAILWSSLAFAKDYEWKEGKVIDITTEKRGAVVVPIASLVGGPSTKTFYWIQTADTVYALGPVIGRRQLLNVTLHEPTKIAIDGKTAHIVDDYGQDRKMPIAEKVARPKSENP |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |