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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_1000021 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) | 54568 |
| Total Scaffold Genes | 57 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 40 (70.18%) |
| Novel Protein Genes | 5 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 5 (100.00%) |
| 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? |
|---|---|---|---|
| F002514 | Metagenome / Metatranscriptome | 552 | Y |
| F005811 | Metagenome / Metatranscriptome | 389 | N |
| F013627 | Metagenome | 269 | N |
| F040558 | Metagenome | 161 | N |
| F042817 | Metagenome | 157 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209235_100002111 | F002514 | GGAG | LRDRDVMNLLDQLELYTLDSGRKEPSQKDYWLFVYKSMKSGLLMTKNMEKHLRYKLKALDIQP |
| Ga0209235_100002116 | F005811 | GGAGG | MIRPENRRQWVPKTAELTLSAGLAATYIITTFIPLTPFIGGPGFITLEIVMLPIIAALLRPIPAFATVFVGSLGMALGQPSFYQVFGLPGLLIPLVAVGAGSIAFHYRLGPIVPWAYVLAGAVYYIALSKGGTLFWLVPYLFVIVSLPVAFRLKSNPRIGLLTFYIAMTEQVTLNILSISILSLTGPVWAVITPLMYVERTIATLGGAAGIVALKSGLGGRLDLMDQSSREVRQ |
| Ga0209235_100002117 | F042817 | AGG | VVDTDSPIRQTKKKESMILDPCYSLVVNQSVTSALAAEALMAPVKRIIVDAAQALAATVAELRGPLSATIARRHCLVERSETTSLDLFASLGLQALKSAMAMGWTLESGWMMRRIWISARSSVRIRMGRTCMMLWIGMRVALGFRLGFHVDSSRKKSRPVIVYF |
| Ga0209235_10000215 | F040558 | GGA | LTRGKTQKRRFSFVDQMTSFIRLTPKNILRIILLVVFPWLPPYLFEKTDFYFHLTHQPDWYYNLSGNRLFVDMASFAVWGIVAAYLLRPRWAVIQIALNALLVWFLFYVACPIYAPGGVWQPECYYAGPDGLVGFRLAGIMFCYGALPVLVRAASKGDALDHRIRPALAVLSGVILSVVMIWYPLSAWFSGVTYLPLFLTFQTVLLIGVPQIATGILAARMGRSLKIGATSGIVSLLFMSAVFWTPECPGCDRSSLYLFAPSWGIFALAGSITELGLPSLLRLPKMPGWWGAIRMEDVRRVGLALVLTVSIWTLVARDFWDPSVLYASSISSNPGELTLGQPFYPYVGAYYDSSQYRICCVEIGVSMSMANPRILAPDNFLMVGMGVQSPNCCIDGWDFGWRADVFLLPNSSMIISGSSWETCDGNANCGGYMWEHLWYHSQTILNPQNLSTPIYLQMKWEPVTVDGQPRSLVNWYYNTTGVAWTKFGSFLPDRRLGTYFDIGLSGGPASEIPQGSAFLYQFGVASKRPVSGWSVSLFNPSFQYLGTWRTMERANIVQGDFSYWKVNYRWGGRPYPGVTARANLLDSSLPVDTVTFSYTGGTMKDFTPLW |
| Ga0209235_100002154 | F013627 | GAG | MTTKATLRSIARLLLVIGGIILILEAVLQLSGDIKGLLNLAPRVPSLDFFTSAIVSILVGVLALIGAGRISSPAWGIILLVLGFLLIASLGGILVFIGALIALVATFVKL |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |