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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 2199352005 Open in IMG/M |
| Scaffold ID | 2199916473 Open in IMG/M |
| Source Dataset Name | Freshwater microbial communities from Lake Mendota, WI - Practice 29OCT2010 epilimnion |
| 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) | 25101 |
| Total Scaffold Genes | 67 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 49 (73.13%) |
| Novel Protein Genes | 15 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 13 (86.67%) |
| Associated Families | 15 |
| Taxonomy | |
|---|---|
| Not Available | (Source: ) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | Lake Mendota, Madison, WI | |||||||
| Coordinates | Lat. (o) | 43.098333 | Long. (o) | -89.405278 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000684 | Metagenome / Metatranscriptome | 938 | Y |
| F000808 | Metagenome / Metatranscriptome | 882 | Y |
| F003393 | Metagenome / Metatranscriptome | 489 | Y |
| F004132 | Metagenome / Metatranscriptome | 451 | Y |
| F005348 | Metagenome / Metatranscriptome | 403 | Y |
| F007112 | Metagenome | 357 | Y |
| F012455 | Metagenome / Metatranscriptome | 280 | Y |
| F017301 | Metagenome / Metatranscriptome | 241 | Y |
| F021288 | Metagenome / Metatranscriptome | 219 | Y |
| F034573 | Metagenome | 174 | Y |
| F037701 | Metagenome / Metatranscriptome | 167 | Y |
| F070095 | Metagenome / Metatranscriptome | 123 | Y |
| F084217 | Metagenome / Metatranscriptome | 112 | N |
| F084233 | Metagenome / Metatranscriptome | 112 | Y |
| F100416 | Metagenome / Metatranscriptome | 102 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| 2200104894 | F017301 | AGGAG | MSNIDTKQLKAMGASYGRSVLGAGLALYMSGVTDPKDLWAALVAALAPVILRAINPADQAFGLLPTVGAVDTALKAVKAPAKKAAAKKKK |
| 2200104905 | F037701 | N/A | MIKSKEWRVSNRVWLGVGFAPRRIALGFSVDRFNATIDFLWFWVSLEY |
| 2200104910 | F034573 | AGGAG | MYRVSRKQIVTKEEKAAIAMGKILSDFYLDLEKVGYYLAKSVPYLIYKRSLSVLESAQFQEDTVEHEKLKYDQRRLP |
| 2200104913 | F007112 | GAGG | MHTLQYIAVEADSKQEAFDKVVVSLDRNEEGYRMPDWSDWHVVGGGRWSTNAQKSPDFMGGYNNDPTDVLGYAEDESKFKETLTQIRLNKAQAMNRNIVEIKTDKFISDMVDYASEGGRPSNEWRGDDVMNTYSIKQAAQMLMGSWTPDSGAYDMVEYIAEVSYLQERLDKPEQAVRQYLVPVDFHF |
| 2200104918 | F021288 | GGA | MLGYTQRDLADMTYGVSQADLLINADENPAIHNYLVKARDFLDGLWAEGYFD |
| 2200104920 | F084233 | N/A | MTLNVQIYEVDYSCSPGGVNCWEVSVDDWCVSDFKTAGDALQYVLDKYPYKELDLNVRSLNWYFKEFADEYAV |
| 2200104923 | F004132 | AGGA | MSDVMTQEQLSVPYNPNLLVTYKYIPETYAAPESPTFMTDKVTQIEWDLHQGRTYAAVAAEARSNHSWLEDQIVEWYDPNYSKEEVLIALAKHFGLNPVKQVEVQGTVSFSGTINIPLNEIEDFDLSNVTIDVDLSSYDYDADLNVDDVSLEDHY |
| 2200104924 | F000684 | AGGA | MTLGGYTYQLGDLFTTSKTGITGRIVKFSPINSKTTRVSLQLANGARRLAMVSTTK |
| 2200104928 | F003393 | GAGG | MKTLEKDDIIPIMDYIKVDVLTAGQLMVNDFIQYGDDVVCISEIISLPDGYNLEIVNDFGERETIEVGEYDQFDLMMLQ |
| 2200104931 | F000808 | GGA | MEYTYSLTTSYDGELINTLRVNDMLEAVNAWDKCVDYGFAKEYATYNLSDPTGKMYTKTFYTNGEVVIK |
| 2200104932 | F100416 | AGAAGG | MGKVKSTIMDILEHEYCYGYGWIYQGNNVDFDSEACECNPYAISADELMDWKLN |
| 2200104935 | F005348 | AGG | MINSVMSFACDECSGSGLIFWGDNLNYDVEKCDCNDFALGTLFTTKEND |
| 2200104937 | F084217 | AGG | MSDYLNYLDEVYTDLVAEYGEGITLAYHEANIKEM |
| 2200104940 | F012455 | GGA | MINEIKNKIIRIQELRRSNAATPIPNKKKYTRKVKHKNGK |
| 2200104943 | F070095 | AGGAGG | MEFYADLEYISLYVNNLYPNGIAIELPTWLLVGTIALVWSIRQWKK |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |