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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300019880 Open in IMG/M |
| Scaffold ID | Ga0193712_1000002 Open in IMG/M |
| Source Dataset Name | Soil microbial communities from a riparian zone of the East river system, Colorado, United States ? H3a1 |
| 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) | 83913 |
| Total Scaffold Genes | 142 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 119 (83.80%) |
| Novel Protein Genes | 5 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 5 (100.00%) |
| Associated Families | 5 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil And Sediment Microbial Communities From The East River, Co, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: East River, Colorado | |||||||
| Coordinates | Lat. (o) | 38.9827 | Long. (o) | -107.0102 | Alt. (m) | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F034408 | Metagenome / Metatranscriptome | 175 | Y |
| F056282 | Metagenome | 137 | Y |
| F061612 | Metagenome / Metatranscriptome | 131 | Y |
| F074512 | Metagenome | 119 | Y |
| F091541 | Metagenome / Metatranscriptome | 107 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0193712_100000253 | F056282 | AGAAGG | VIDKPVVGVQTDARPHPAGGKGARLSLNEVAERAWKARMSPRLRAWVTQVLDKAGVSTGGRRQKAQAVLDAFRKKVPYIADPVMGEFMATPEQSLCLDEGGLCFVGGDCDDHSIGLAAAMMSIGIPAMIIGASYRDPIDVPTHVFMAFQDDFKDWVRMDGTTKQAVGRVSPSRKEFWVEPGATAKDSGEGDFVGMSGASSGMLAAPVSLSDLRYPGIR |
| Ga0193712_100000256 | F091541 | AGGAG | MSKSIVGRPMKKFGQDQERPKRVPFGLGVPATDGTLAADAAQKCLRCSFGNIPVIEEVVWTIPLPLTSEEALSTLGDTVNLLSGSSSVPGVASIDSTFLINGILQTDILAQGIGVHVFCEPMSFSTIGNSFVAPATTVNPPPSPDVFTTNDLTNRAMSTSVTATGDNFGPAVFEFGADVWRAGWNFINAYQFQWKTSQRELVLNELAADVSYFGSFADAEASGTSEVAIIEFVAAVNATYRSKGSSTIFLPVNFRRVGSVNSTSATNNVGVFHPTRDFDLAPVTWGGLRWQGYGCKGQMYRPIESPCFLERGIPIGMLFVVQDAVHQALMLQAVTLNNEPFGVNVSVDENLVDATAPTAASGVPTAGAIVVGGANTMLEQTLDATPVLVPQQVNTSRQIFKGGILKLAIKIKGWEMPGGWKAYCQSNLPQIMTGSASV |
| Ga0193712_100000258 | F034408 | AGG | MQPHDHQIRNLALYAPKIAFGMMAGVPRVPFIADIPIQFSSSTVNAPPVVQNFQNNLTQDTVIERIAYNLGQPNSFPGSPFQSTYFNQLKQSGQIGVGVQMAVYGGPKYNVNDTFTDLGTLADVFAVTWPNGWPLQKQSNVKVSAILTQTPVSVPFNITMTFLGWQFLSKELDDLSDEEARARLRKLGVETPDLKILLSNG |
| Ga0193712_100000267 | F061612 | AGGAG | MPKLIHQETMCCGYKKCPELKIFEDGSVELSDNDEEIGSVGTLKLRPEVMSRLVEIYSKI |
| Ga0193712_100000270 | F074512 | GGAGG | MSGFLLISALVGATLLVVRSTLFDPIRRIWPALLRCSQCFGTWVGIAASASGVVPVGHGRILDALIVGAATSFLSLLADAVLLYLLGDPSEEPESHAPKTDDSESKDGAQP |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |