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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_1000594 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) | 18492 |
| Total Scaffold Genes | 24 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 17 (70.83%) |
| Novel Protein Genes | 5 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (80.00%) |
| Associated Families | 5 |
| 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? |
|---|---|---|---|
| F001816 | Metagenome / Metatranscriptome | 630 | N |
| F004426 | Metagenome | 438 | N |
| F013876 | Metagenome | 267 | Y |
| F014601 | Metagenome / Metatranscriptome | 261 | Y |
| F028763 | Metagenome | 190 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209235_100059413 | F028763 | AGGAG | MSEPARSKGRIALGVFAIIMGCVSLVGLSSTSYYFGLGIFGGAYGAVMIALGVALIAKKEAVY |
| Ga0209235_100059414 | F014601 | AGGAGG | MSGSTGEGQRPSPVPRAVLAGLIAGMAAGLVSYYVINSVLGLIIGFIAGAIVGSRTVLLMNRAREQDK |
| Ga0209235_10005942 | F001816 | N/A | LPLSPDTKKEAEKRLTVLKMIELFADKCAKSTLLNGPFGGDDRAFDRLLGPAGILTRTSLVRATTDGRVTYYGRTEAGKIYQQVLDTELNFLDPYTGGEVWKK |
| Ga0209235_10005943 | F013876 | GAG | MSSIDDPILKELLTALKEDTQLMASDLLSVITTQALIAVFALFLAIASLARIILFEQSPFRMGGPGPVPGLFETALTFVLFAMSVVSIYNLLRLHERYARLQALAEKLGR |
| Ga0209235_10005947 | F004426 | GAG | LATRRRAHPGRTVHSMVDEELRVSTHKSIIKTLGRQYTDAAQFFVELVVNSWMWGEATKVEIRVPESGSAIEYEEWGNGMDLTGLREFLTKGKLTDEGFSPKYKRPIRESYGMGSLAWLTVGKDLELQVHKGRFDRTITLTENLIDKHWDATDQSTWRPLRLIQAPLDHDGLRIRIRSLTKKPDPVDVRRALLARANVLTLRGYGPFEVSVNGEQVKPEELRGSTLLPVSIATEYGKITGEIMIMPISKVRAGISEAGISVQQKHITCLQHQFFGLDQYRTHGLSRIQGWVNADFLRRLPGGNEFEHDSAQWRVFEKAMRGFVRNKVYKFLRQTASRRELRSIQYLNREIAERLRRSLRRNVQILSKAMLNPRVTPKINIVPGKTRKEIVLGEKKHRRGKRHSREATRSIIHLKDQILAFDVAHGGDRGQAYVETDKSGIRTVYVNMDHPMWYVEAGMTPTKLRYCIRQILERSIAEEILPVSPSTPEETFSTLDALYNDALA |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |