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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300026097 Open in IMG/M |
| Scaffold ID | Ga0209953_1000001 Open in IMG/M |
| Source Dataset Name | Salt pond water microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R2_restored_H2O_MG (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) | 261806 |
| Total Scaffold Genes | 327 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 267 (81.65%) |
| Novel Protein Genes | 7 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 7 (100.00%) |
| Associated Families | 7 |
| Taxonomy | |
|---|---|
| Not Available | (Source: ) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Non-Marine Saline And Alkaline → Saline → Unclassified → Pond Water → Salt Pond Water, Soil And Salt Crust Microbial Communities From South San Francisco Under Conditions Of Wetland Restoration. |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | South San Francisco, USA | |||||||
| Coordinates | Lat. (o) | 37.4958 | Long. (o) | -122.1331 | Alt. (m) | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F009597 | Metagenome / Metatranscriptome | 315 | Y |
| F010160 | Metagenome / Metatranscriptome | 307 | Y |
| F025997 | Metagenome / Metatranscriptome | 199 | Y |
| F041504 | Metagenome / Metatranscriptome | 160 | Y |
| F043378 | Metagenome / Metatranscriptome | 156 | Y |
| F055434 | Metagenome / Metatranscriptome | 138 | Y |
| F068717 | Metagenome | 124 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209953_1000001107 | F055434 | GAGG | MQYNKIFTNCAVVSDENFDLLTAEQLEAFTQAERAFVLVFLADTLANLTQVNADCAVENDNYFVRLADAQEVMQNLQMLYDTLDDSDDCTNIQFTLADAGAALCSYDTEYRECIAEQFEDACDNAAKLAKQTGNTNADYSTLAVRVLCSY |
| Ga0209953_1000001126 | F041504 | AGG | MTTLLQHIESLNAKADLMMEQEPGLWMSKYTDDMSFWADMGVYTVEDFKRSQLIDGISDASKDLNGCRLRLNWDVMSMEELEDTYDSICSALNRQFEAEQEAEAYEAELRKGLSDNCEPLPYEEYADLEAV |
| Ga0209953_1000001135 | F068717 | AGGAG | MYEKYYNPQLTLEDYDKIVKAKSGHWDKKDKDAMRALQPYFTLGYLETNRSGEIWLTVKGTRTLQAAGCDPLDSRKFFSNSPKLEQHDG |
| Ga0209953_1000001204 | F025997 | AGG | MTVINDKFQAQNGFESPNFTVDTSGKITAPVLDVQSILLNGQPFVAFVEPEDDADDTGTQVSNSFESLAVTGGVFKVNYLGNSTLAVINGRVVVNSYGAIPGAFDNVDIGYNTPGQIKVYTIDMTTAPDSTASNINVNDANFNGDLQIIDNINLTNEPTRSEHATRKSYVDATATALAVAFGA |
| Ga0209953_1000001206 | F043378 | GGAG | MMNKLLTNLFSKGLNNTIHLPDRNSFSYKGNWLGVHPNTVMDSWHVGDFSSVVYQITVEYDSNEKEIMQLSVVARPDRAVASVFGRSSINQELITLEVTVDESICKVMVRPASSIYTGAKLIFHATYAKTIHQLTPPAIIADVSTVESDGINTFDSIDNTMDNTSITFDKV |
| Ga0209953_1000001322 | F010160 | GAGG | MQHTIQQLMDKVSAIHELTVLAHREKYKKAPGEEYDFDRVTHLVDQIQALAGDIYNDKQIHPKLKEKKNGQ |
| Ga0209953_100000153 | F009597 | AGGAG | MKYAVMVCLDGKDDWIYVTENTDKCDMWNLKVQTFNDAQEAMTFAQTFQHPDKPENVMVVDYYED |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |