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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300034102 Open in IMG/M |
| Scaffold ID | Ga0335029_0001481 Open in IMG/M |
| Source Dataset Name | Freshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME17Jul2002-rr0112 |
| 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) | 18694 |
| Total Scaffold Genes | 38 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 28 (73.68%) |
| Novel Protein Genes | 9 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 8 (88.89%) |
| Associated Families | 9 |
| Taxonomy | |
|---|---|
| Not Available | (Source: ) |
| 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? |
|---|---|---|---|
| F006385 | Metagenome / Metatranscriptome | 374 | Y |
| F007263 | Metagenome / Metatranscriptome | 354 | Y |
| F013527 | Metagenome / Metatranscriptome | 270 | Y |
| F024314 | Metagenome / Metatranscriptome | 206 | Y |
| F027847 | Metagenome / Metatranscriptome | 193 | Y |
| F056558 | Metagenome / Metatranscriptome | 137 | Y |
| F062758 | Metagenome | 130 | Y |
| F071231 | Metagenome / Metatranscriptome | 122 | N |
| F093845 | Metagenome / Metatranscriptome | 106 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0335029_0001481_13428_13598 | F024314 | N/A | MDSDQQKLTPEQVQAILLFQIEQKLRMHIALQVESKFHGKYHNESHEIAQFIRNMS |
| Ga0335029_0001481_13591_13782 | F056558 | AGTAG | MGILDNLENAWDEEFSFESKPMKETDAMGREKFWEDLGRPEETSLAVKLFSETCCTDCSCKNG |
| Ga0335029_0001481_14030_14218 | F093845 | GGGGG | MIKATLTTTMGTTREMSFNTKEHLLEFIELFEATLPLGTAVNIDAPLVGIHSGWVQGKAPKI |
| Ga0335029_0001481_14219_14341 | F027847 | AGAAG | MNPFTAVIDWIDENGDFGAPIGAFIGVVIAIALCFIFGGN |
| Ga0335029_0001481_16501_16701 | F071231 | AGGTGG | MMTRKDYVKVAEILSNYFATSVFDEQGEMLFADLVDEFSLMFESDNERFDANRFAIACYKELEMSN |
| Ga0335029_0001481_16698_16850 | F006385 | GGAG | LILDNGTLIAIVIALAGSVGMMIAFWQRNVQLEKEIRRLQVALRTERLKK |
| Ga0335029_0001481_17369_17536 | F007263 | GAG | MIKEYIDENEFYLIKDEQRYCCDESQFKYVCKAHGETMGCYFCEFDYSTTCEEQH |
| Ga0335029_0001481_17757_17921 | F013527 | AGAAGG | MEIFEFNTFINVEAESYDEAIDVFQFQLKYGINKDNVYVADISQLTNNNESVEV |
| Ga0335029_0001481_6833_7429 | F062758 | AGG | MADILLSNEDLTVFGGPESISLDLDIGPQGDRGSIIIGTLGDPRDATVASYIVQDVQALDIAVDANPNSPTYRTVFQRIATPTGLQWTPVVSLKTEFYSSIKTLPAENGKITIPPINVTEIYLFQESSTVDSSNFSVQYSISSPDSGGPLATTLVVKELNTSSGFLALPLEIKGVEYDGANWIPMTGTKNVHLFITVV |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |