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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300026296 Open in IMG/M |
| Scaffold ID | Ga0209235_1000032 Open in IMG/M |
| Source Dataset Name | Grasslands soil microbial communities from the Angelo Coastal Reserve, California, USA - Sample 09_25_2013_1_20cm (SPAdes) |
| 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) | 49939 |
| Total Scaffold Genes | 66 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 41 (62.12%) |
| Novel Protein Genes | 8 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (50.00%) |
| Associated Families | 8 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Archaea | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Unclassified → Grasslands → Grasslands Soil → Grasslands Soil Microbial Communities From The Angelo Coastal Reserve, California, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | Angelo Coastal Reserve, California, USA | |||||||
| Coordinates | Lat. (o) | 39.718176 | Long. (o) | -123.652732 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000611 | Metagenome / Metatranscriptome | 987 | Y |
| F002499 | Metagenome / Metatranscriptome | 553 | N |
| F008682 | Metagenome | 329 | Y |
| F008901 | Metagenome | 326 | Y |
| F025571 | Metagenome / Metatranscriptome | 201 | Y |
| F031050 | Metagenome | 183 | N |
| F038622 | Metagenome | 165 | N |
| F066662 | Metagenome | 126 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209235_100003232 | F038622 | N/A | MSWPSLVRHASRLRLPFWLWAIIIGFAPTRLLATLDYLVVPPGGPGGYLLDTAVVLSIFIVYFVYAIRFISSRMEQLSDYVKRMSPDVPVDSLRIPFRAANILAVWVILLVAITLLFGFPSPTTVFSEHIAVIAYFFLILASFLWVYGYSMYAIHQAGKLPLRLKPFTEDRTLGLKPFGTASLRLASIYAVFPVTLTLLELVTLNVEIPGGITITFAPLRLTDVIFSFGLILAGIALFFLPLLSIRKRLQEAKRQELSWVTPRYTTIIQKLREQISKTPPEDRSSQTQALADELTMMRQVQQDIQKIQSWPFDLGVVSRLATVLVIPPILGVLARILILVFLHL |
| Ga0209235_100003244 | F008901 | GGAG | VRTTITQTFQSTLNQSFTTVIEDILGRTVKEETFQLLESREIKTSQVSSRFDDVIEVLTRVFGTSAQVLVYKTVTELYKEYSLRTDFDFGGSLIDQVALLREKVVGDLLKPKNYTSIYP |
| Ga0209235_100003246 | F002499 | N/A | MPGFQLAVDYWFDRVLQGMGGPIRDWIYDFLSKKGIGREDIPGRFEDVVKTLTERLGTSARVIAYRTVVELYKEFALPPNFEYDDSLPDRFVYLKERVVADRLHPTTPSLRFPA |
| Ga0209235_100003251 | F000611 | N/A | MNFPTYVFATVNSGRSTNVVEELKRNSQIDLIAPVTGRYDLVLRLKPNTPHNVYQTVKEIREIKDIRTTDTHTGFDGIQPTKKFENQMALGFSLLNCEHTTSENVIKQLSSIPGFVEASTVPGQFDIVALWQARTSEDIVKTSVERVSHLDGIFKSETLLAYAPFFKA |
| Ga0209235_100003252 | F025571 | GAG | MAGHHPVGHGKSAPTTAQGWVDYWTDYYHLSKQLRKASQESWNATREVWKRKLVQAKRIRCQKCIEIVRLWLRTYGYGPERRILKENISQRGKTRKTTF |
| Ga0209235_100003254 | F031050 | AGGA | VAIARKKNGVKTEKMSSIKVMVAFGQQTFDLINGEAKERGVTVQELLRAVIIPDWFRTHGELLTKITMPEARRIEPLTKPDPGLDQGSKFHSNRLYLV |
| Ga0209235_100003261 | F008682 | GAG | MDLSKPVAEILVEGELSPFEHEALYKLLKKHFRLEQPSYSEFLDETVGTRVKIIFHHRYERSFFTDILQDDWRGLKDLFKQIRYRRGRLGAGFTLTFVDQKIRLVFSLGLLEDEELGSAMDQIAHLTGIMGQMMRPETMIEPLEQVEASFDRRTDRWQEFRGVGLNDRKEYFFDESLFRWKTR |
| Ga0209235_10000328 | F066662 | N/A | VAKVFREIEGSEDILSTRIFRRTKTFVSNELLPILDPIVKHHQEPTVKRETFSDMERKLLETIEARGSIRTDRLRKKLGLLGKENNSKFHRSLINLENYAIIVGAEDPKPEKHLHANIWQTWETRTGEGTYRVRLSYREALAKLLGKTMNACVLAREDQLRKWFPWKVDMEEAKEESLKKGRIVKSGPFIVAPRILRS |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |