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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027137 Open in IMG/M |
| Scaffold ID | Ga0255092_1000233 Open in IMG/M |
| Source Dataset Name | Freshwater microbial communities from Columbia River, Oregon, United States - Colum_Yuk_RepC_8d |
| 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) | 24483 |
| Total Scaffold Genes | 41 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 38 (92.68%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 4 (100.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae → unclassified Planctomycetaceae → Planctomycetaceae bacterium | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Oregon | |||||||
| Coordinates | Lat. (o) | 46.1812 | Long. (o) | -123.1834 | Alt. (m) | Depth (m) | 5 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F019635 | Metagenome / Metatranscriptome | 228 | Y |
| F022865 | Metagenome / Metatranscriptome | 212 | Y |
| F031455 | Metagenome / Metatranscriptome | 182 | Y |
| F081253 | Metagenome | 114 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0255092_100023324 | F022865 | GGA | MKKAKTVTETKPVMGRPRKHARNAITCVVKLPPEVVAWIDARYTTRQEGLSAIVANAAGV |
| Ga0255092_100023325 | F019635 | GGCGG | MAQIRIYIDGDTEQPTPQAEPTPDLQAEIDRINRTLSDVMRRIAKIESDVRGLRLRLIEDDAEGQVP |
| Ga0255092_100023328 | F081253 | GGGGG | MSLIQTPEQLADAIRNDPQRVAECLHRINRFGGQAIGCSVLQHSLAVYDRLAGWPANVRLWGLLHDCHEILTGDVVRPYVDSWLIQQQVDIDQRVRNELRLTLSDDDAMAVTRADVWRGGCEFQEVHAGRPVYQHLTPVSDWVDSVRVLLQEVAK |
| Ga0255092_100023330 | F031455 | GGAGG | VRLHPVIEQHRLHQLAVGQSVLLRIPREQFTPLRRVILYFNECTDDGTALRTKIQPDGITVSRREIVRIADSPDWKVGKLKPFPCTDRLSLEHAVARANEAAKQLQRGYRFRVIVEGGKSFVLKTLCRCRCVIHRQEQYLRIVGMIRRLSVDCVGNVDNVELRDVRRVQRNFKHSLRFRAKQISDNTFQIRRTR |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |