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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_1000274 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) | 25179 |
| Total Scaffold Genes | 32 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 26 (81.25%) |
| Novel Protein Genes | 7 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 6 (85.71%) |
| Associated Families | 7 |
| 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? |
|---|---|---|---|
| F001047 | Metagenome / Metatranscriptome | 793 | Y |
| F004426 | Metagenome | 438 | N |
| F013876 | Metagenome | 267 | Y |
| F014601 | Metagenome / Metatranscriptome | 261 | Y |
| F025249 | Metagenome | 202 | Y |
| F028763 | Metagenome | 190 | N |
| F059803 | Metagenome | 133 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209235_100027421 | F014601 | AGGAG | MTGSKDDSRRPSPIPRAVLAGLIAGIAAGIVSFYVVGPVGLIIGFIAGAIVGSRTVLLTNKAREQDQ |
| Ga0209235_100027422 | F028763 | AGGAG | MSEPARSKRRIALGVFAIIMGCVSLVGLSSTSYYFGLGIFGGAYGAVMIALGVALIAKKETVTG |
| Ga0209235_100027423 | F025249 | GAG | MRSLCSRFNALPAENKDPSAESDTHSPPPSVFGIIVVGLLAGLVVGLLAGPNFTLQGFFLGFAGGALITAGLYFYTAGRSRPAR |
| Ga0209235_100027428 | F004426 | GAG | LASRRRAHPARSVHSMVDDELRVSTHKSIIKTLGRQYTDAAQFFVELVVNSWMWGEATKVEIMIPESGSTIEYEEWGNGMDLSGLREFLTKGKLTDEGFSSKYKRPIRESYGMGSLAWLTVGKDLELQVHKGRFDRTITLTENLIDKHWDATDQSTWRPLRLIQAPLDHDGLRIRIRSLTKKPDPVDVRRALLARANVLALRGYGPFEVSVNGEQVKPEELRGSTLLPVSIATEYGRITGEIMIMPISKVRAGISEAGISVQQKHITCLQHQFFGLDQYRTHGLSRIQGWVNADFLRRLPGGNEFEHDSAQWRVFEKAMRGFVRNRVYKFLRQTASRRELRSIQYLNREIAERLRRSLRRNVQILSKAMLTPRVTPKINVVPGKTRKEIVLGERKHRKGKRHSREVTRSIIHLKDQILAFDVAHGGDRGQAYVETDKSGVRTVYVNMDHPMWYVEAGMNPTKLRYCIRQILERSIAEEILPVSPSTPEETFSTLDALYNDALA |
| Ga0209235_100027432 | F013876 | AGGAG | MSSIDDPILKELLAALKEDTQRMAADLLSIITTNALIAVFALFLAVASLVRIILFPPRFGPGPVPGLFETALTFVLFALSVISIYNLLRLRERYARLQALAEKLGR |
| Ga0209235_10002744 | F059803 | AGGA | LMGTEMQTIRTHMNTNLRRRALLLAVLEFIVGGIVLLGGAALVYFSIDASGKTLGIVHVFLGLMAFPAGYLLLMGKARARVLTLGVDVAIIAFSTVSEVILSTTGSLASGPFTDSIIGTTVAVLIAVAIAYAVMRDRSQTLAGRPSSVR |
| Ga0209235_10002745 | F001047 | N/A | MRVIRFLMRETMFDESYNIREVLDDVIERVTLREKLIQTAKGFAEKKKEERYTLAIRQFENLMTDFLRLYQPILERLRSYREGLQKELSTLKSSLATVNGMLEVSKGIEGLAARLQRLESDGQELDETIKEKSKIGDKIDDLFNRIRTHNPGIPGPGRDSFADVMSGMPKDLFPEEPTREAPSAKKASTRG |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |