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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_1000060 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) | 41361 |
| Total Scaffold Genes | 48 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 37 (77.08%) |
| 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? |
|---|---|---|---|
| F002975 | Metagenome / Metatranscriptome | 516 | Y |
| F003037 | Metagenome / Metatranscriptome | 511 | Y |
| F014368 | Metagenome / Metatranscriptome | 263 | N |
| F016387 | Metagenome / Metatranscriptome | 247 | N |
| F029395 | Metagenome | 188 | Y |
| F049864 | Metagenome / Metatranscriptome | 146 | Y |
| F084018 | Metagenome / Metatranscriptome | 112 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209235_100006011 | F003037 | AGGA | MWVEFKCPICGGDLDDDKSMANFMICNESSHGTLRFFTGDGCFFTSNAKVAEELVKKGKRVHVVDPKEFFAKQD |
| Ga0209235_10000604 | F002975 | GAG | MADFCSRCGKTLSLIDPLLELKGLRFCEDCYPDVKREHAAASMSDKMDRKNRAAFADDESDENLRGSIIKGKQALAAKENEFKWDNPSLSLIASALRILTDQNKIIMKQNELILRELESRTPAVKSK |
| Ga0209235_100006040 | F084018 | GAGG | MDKKSSSFTSRDLALVAGMSALYLGYSYVSGVTLGHTIREVDLFFLISAVFTILVSLTRKPWSATILGTVTGLILVTTPGAPLAVTLALIPNGIVFDLTLRAGDHLFDDLSRKRFAVAGALGNLAMAVFGLAMLQAFGFFHGFGVSTLVLIWVTALVGDTLVGALGALFGTAVVRRLGERVRSPLIR |
| Ga0209235_10000605 | F049864 | GGAGG | MAKFILSVGDGTFKILASEAKRRDVTVQQLLRAVIVPEWVRENIEPSPPSIAPREVAPHLIHQSIYPSQRDQMLQAPVNRLRP |
| Ga0209235_10000607 | F029395 | N/A | MDATLADNEKRDGLSGSYVRDAKTDGRLRNLLIDLIASSKALDARVWLDGVYTDVDDEQVRGEWINDRDVYFKVEGRVDKRNSL |
| Ga0209235_10000608 | F016387 | AGGA | MTLAPTRTMFELKSTPVSSSRSVTRTLRLDEDVEAGIVEMAEREQFSFNLLANRSLRKLVEWEDKATKFGFIQVPTSLVEKVFSILTDEEARELGKEAGANTIPEMVLFWFKKFNPETVLKALEMIGSYGNAFRLQYTIDGETDTVVLKHDRGPRVSAFYGELVQSLFKPMGAKVETHETDGQIVATITRPLTGLASEHREAPLIPSFAGAKNGRGYKR |
| Ga0209235_10000609 | F014368 | GGA | MTQIENALKTETRRSPDTVTRTFRIDRDVDRKMEGLSSEGRVSMNQMANKALRRYVEWEVNAEKFGTVTTSASTIRKFFDYLTIEQAKEMGSWWGENQAPGIITFWFKKFDFDSVLKALEFLGAQYGRAFTSDYAFDGRSHTLIVKHDMGLKASVFYAEAVKAAFSHLGLGTDIFVTDDQVIAISPPDPAHPLNRSYEGAADLKYPTSATSRPIPKLRRGQRADTENRED |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |