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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300024346 Open in IMG/M |
| Scaffold ID | Ga0244775_10000481 Open in IMG/M |
| Source Dataset Name | Whole water sample coassembly |
| 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) | 49235 |
| Total Scaffold Genes | 128 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 82 (64.06%) |
| Novel Protein Genes | 11 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 6 (54.55%) |
| Associated Families | 11 |
| Taxonomy | |
|---|---|
| All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Columbia River Estuary | |||||||
| Coordinates | Lat. (o) | 46.234 | Long. (o) | -123.9135 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001881 | Metagenome / Metatranscriptome | 622 | Y |
| F012341 | Metagenome / Metatranscriptome | 281 | Y |
| F014004 | Metagenome / Metatranscriptome | 266 | Y |
| F020907 | Metagenome / Metatranscriptome | 221 | Y |
| F029435 | Metagenome / Metatranscriptome | 188 | Y |
| F037191 | Metagenome / Metatranscriptome | 168 | Y |
| F056403 | Metagenome / Metatranscriptome | 137 | Y |
| F063622 | Metagenome / Metatranscriptome | 129 | Y |
| F071779 | Metagenome / Metatranscriptome | 122 | Y |
| F093767 | Metagenome / Metatranscriptome | 106 | N |
| F105024 | Metagenome / Metatranscriptome | 100 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0244775_10000481111 | F071779 | N/A | MTTRTTYRVIGFGTNEHGFFNEFAHCGTIGYACGFYNGHLQDPEMDGVVLIRVNHEDWEVIQEFGTIPYSVVCGPGASFKVERAVDMVLV |
| Ga0244775_10000481117 | F014004 | N/A | MMTTLTLQVTEVLFDFDDEDFTLEEQQSVVDSVLGNTYQVEVDNENDDEVVADALVEEVTDYAGWCVDALVEEVTDATGWCVVSLNYRQVSN |
| Ga0244775_10000481118 | F105024 | N/A | MTSPSTDKQSSWIDELIRWENSHPEYKPFKEDKDSQRQENLKENF |
| Ga0244775_1000048114 | F093767 | N/A | MLNLKDKIIEARLYSPHKCEFICEREDGTHYVYRRLEDEEYYELQPNPTGETKWLWGEKIND |
| Ga0244775_1000048117 | F001881 | N/A | MTERAQAFMSAIWEHRNNGADTEEKLVAAILFTAAENIRSYTAQNDLIVLDKNDLLSLAEELNA |
| Ga0244775_1000048144 | F012341 | AGGAG | MKISIKEFFEMVTKTIAEPNTTITDQHKRKAIRVFLYLDEFMMENVPEYCGDTALGEIDFGYYAAGVLDELEGK |
| Ga0244775_1000048150 | F029435 | AGGA | MGGKMKKQDLQELLTPEFLSTLHTAVECCNWDVDMIESMEFCDWCYNMAGQPEPVYNLGVAMEAK |
| Ga0244775_1000048157 | F020907 | GGAGG | MTNEQLLNSLQGTMATIDPYSIKKEAIDEYRIDTVEERLTRIEDKVDLLITQLKIEFYKKNDGTSR |
| Ga0244775_1000048168 | F056403 | AGG | MTKIEIGSKWKHKNSNDVYVVKEQYSHRVVLEHEPTGKTIKLTIGHFNPQGFDEYRPL |
| Ga0244775_1000048174 | F063622 | GAGG | MKLHERLTEWYYTHDAVQSGDVIANEIVDVVKDWLKNYHKEDNNKYDFDYFSGWSDCIETLEKDAR |
| Ga0244775_1000048190 | F037191 | GGAGG | MTVAEWIEKLKTFPQDQEVRITDGHRYNFYEGDFAFQLFEDIDGSTFVDIGIGGFDEGDD |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |