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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300021420 Open in IMG/M |
| Scaffold ID | Ga0210394_10000044 Open in IMG/M |
| Source Dataset Name | Forest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-C-12-M |
| 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) | 299843 |
| Total Scaffold Genes | 265 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 216 (81.51%) |
| Novel Protein Genes | 8 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 8 (100.00%) |
| Associated Families | 8 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (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? |
|---|---|---|---|
| F000072 | Metagenome / Metatranscriptome | 2651 | Y |
| F004959 | Metagenome / Metatranscriptome | 417 | Y |
| F007759 | Metagenome / Metatranscriptome | 345 | Y |
| F008143 | Metagenome / Metatranscriptome | 338 | Y |
| F017370 | Metagenome / Metatranscriptome | 241 | Y |
| F019446 | Metagenome / Metatranscriptome | 229 | Y |
| F025531 | Metagenome / Metatranscriptome | 201 | Y |
| F102903 | Metagenome / Metatranscriptome | 101 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0210394_10000044153 | F004959 | GGCGG | LKTRSSGAQKEAPAILKGWQEISAFLGEPVSVVHRWAAEGMPVRREGRFVSTSPEELNAWLGKESGKPVHVATDNTDLSSELKRGLSFIRRQKLR |
| Ga0210394_10000044184 | F025531 | AGG | MNSRDNQGPDRDVRERIVNLMQSIGKGPKKQIPAEELQKLKGAASRLDQMLKAAANADQQALKSAAAKLDQLLSDIRAGKDVTSNLKRRENSGT |
| Ga0210394_10000044223 | F000072 | GAG | MDVERIIDEIEQLQEMFEAPDIRPLSASDISAANRRHDETLAHSPWFRLWQQFGVCCRPESPVIRLPE |
| Ga0210394_10000044237 | F007759 | AGG | MKRVLILILVITTLAAARDKKPKTQPGPYVFTSKASAQTLKALIVQANLNEGYVLDSDNQLQFRFSKPAQMPLVSALFMASSACSGMTTKKVWSYTLVELNGTTKVTVQPVWEYPDDYCKTQTQGLIWGQPEEIAAFQAMLDKAPTASTQVPTSTGATVPPAVAPGSTPTMVADPQQSMKQHTACLELAKDNRSIICK |
| Ga0210394_10000044244 | F017370 | AGGAG | MLRNISKLMATALAILAFALTSSAAKAQSFTGNYPVLETQVKAGVGGTIKGANQNFCLVLTDDGGFGRLHSGTATLEGFDGGSLTGGEFYVIGNNIFVNFVVGSSTGEASGLVIFAPANASKGAIGTGILGLTGGVPSSGLATFGVKNGC |
| Ga0210394_1000004435 | F019446 | GGA | VTDAENQFLENMPDEIKEVLRWHADAQSRGQVNQSIADFAGRLLGSMYEDGAVLPTNLSASTPEVLALVLLQHRTSPRSTGAWLNLGFALRRVALYRTQDPEETNRARLQSAVQAFDRALELDADNNGKNVRAWTGMSLAYHMLDMYEKELECCARALESDRSDPKLWLLYSFALKSAGREDEALSTMNDAYEAYIRAGKPDELREVFADVQSTTQRPCRQRMAQ |
| Ga0210394_1000004436 | F008143 | GAGG | MKSVGGIHRTRLAASKVHRHLVKVARRTVQKLGWQVPEDDMSPTLVGAMPLPFPVPDSFEIAFGYKGNLRFVQFGYTAGSPQFGYSDGGDDLPSDGSLWSWFLHHPAVAPYLPESRYPTLYGKFPSGTERPPLEQIMRRGAELPTCHCLLLDRRDRRAYVSERDQAMILFALMEPDDGDAHNVFVDGMLMSPGSEDYKVGPPPGVLDEFRRFMDSRLQAFESA |
| Ga0210394_1000004442 | F102903 | GAG | MPKPWIELKEARGRTIKKMNVVYDEEYVAVEVEFEDGHSMNVDIVPAVQIRPQFQHVSTGDTRILRNYRSRISVAGGLKINLRSEADLG |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |