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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300034019 Open in IMG/M |
| Scaffold ID | Ga0334998_0005054 Open in IMG/M |
| Source Dataset Name | Freshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME24Sep2014-rr0049 |
| 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) | 10307 |
| Total Scaffold Genes | 22 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 5 (22.73%) |
| Novel Protein Genes | 10 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 1 (10.00%) |
| Associated Families | 9 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Lake Mendota, Crystal Bog Lake, And Trout Bog Lake In Wisconsin, United States |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Wisconsin | |||||||
| Coordinates | Lat. (o) | 43.0995 | Long. (o) | -89.4045 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000710 | Metagenome / Metatranscriptome | 925 | Y |
| F002259 | Metagenome / Metatranscriptome | 577 | Y |
| F003659 | Metagenome / Metatranscriptome | 474 | Y |
| F005775 | Metagenome | 390 | N |
| F006697 | Metagenome / Metatranscriptome | 366 | Y |
| F008615 | Metagenome / Metatranscriptome | 330 | N |
| F011474 | Metagenome / Metatranscriptome | 290 | N |
| F016114 | Metagenome / Metatranscriptome | 249 | Y |
| F026828 | Metagenome | 196 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0334998_0005054_1774_2178 | F000710 | N/A | MASNMNISYRQGIRNKGFQVTVPTTGATQTLSLSGLAKAFEGIILSSTTSAAPATIINATQLRVTLTINNDVVIDDVVAHELGASVATGITTGFPAFIPFPRALTGQDTILLRVTNSSGASQLLNATVYYKNEI |
| Ga0334998_0005054_1_222 | F011474 | GGA | MKEKIDHLTHFDIVVKEELAGCDNADQMLHVLSSNYDLRKPLGGITKAAFTIGLRTAVGMLKPEVIANFNYRPK |
| Ga0334998_0005054_2190_2741 | F006697 | N/A | MANQVQKLAYVDNKLGVSLPGQQTTRIIYDSVNAAAGQQFFEFFTNFAGKTEFQTNLTTNKLDASESMIIKSIQILGDFNGTPTPADLAGHMNLNITVGNQVIIKDFDPSFNAGSRGLSFDRLHSGFTSTANLELRLLTEIVIPPQVNFKATLQLSNTLIAVNDDITIVLKGYGRIFSAGNSF |
| Ga0334998_0005054_2744_3301 | F002259 | N/A | MGMSAQDKMLNVASRLGLTSLKDMQGTTRMVYDSQTTAALNHEFFKGASQRAFPLSNVGANGNQFQVNEALLVEKIGFFIPTAADGINYTGLTAGFSVKFDLIIGNKTVIKDATCEFGGEQAFYNDGTAASGVIDLEGVGILIPPQVEYYVVAKPFNGGTRVASSQRLGCYLFGTGALLNFNTTI |
| Ga0334998_0005054_5726_6121 | F005775 | N/A | MAKQRPIYTKAQHQIVTPAFVEKKIQLHKSIKWTTKDDRDLFIMVSGSVTRYVPKSEHNSQAPMGFFNLQMGHYNKISIHTRDFAQLVEVFEQLTLFLKNNSGKLDQVLTKELDTYTTHHLKNLLNTNEQP |
| Ga0334998_0005054_6121_6288 | F016114 | N/A | MENKYWAAAFFDSRDVETINDMAAMARRMLISQRELQRDELLRLKMKYPHLTTKD |
| Ga0334998_0005054_6290_6622 | F008615 | N/A | MNTHNTFGAKMFGRFIKKGWHISFTDSYQDRVCVIPPERLDAQHVFGIYIPVMRHTWQPDLKREWWAALQSKDCMLGPKFEATAHPDDIERFAAFAAWIGDLLRNPEKFT |
| Ga0334998_0005054_6916_7029 | F026828 | N/A | MSEELIANAIAFLAGWILKRPDFVQKILSKLFAKKDK |
| Ga0334998_0005054_8163_8534 | F003659 | N/A | MPLIASQVVGRYLIAREDVPVYDFPNGTRIGTIPKGNSTAEVYSFVQRPGQVWWMFDYTIPGQTPGAYYVLQKDGRFTLSAAAGNVLVRPSSLPSVDVFPAGGIKKYALFGALGLLALLILKK |
| Ga0334998_0005054_9218_9484 | F011474 | N/A | MKEKIDHLTHFDIVVKEELAGCDNADQMLHVLSSNYDLRKPLGGITKAAFTIGLRTAVGMLKPEVIANFNYKAKELKETRYPHLKIFR |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |