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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300025075 Open in IMG/M |
| Scaffold ID | Ga0209615_100607 Open in IMG/M |
| Source Dataset Name | Freshwater bacterial and archeal communities from Indian Creek, Illinois, USA to study Microbial Dark Matter (Phase II) - 4B3 metaG (SPAdes) |
| 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) | 3123 |
| Total Scaffold Genes | 8 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 4 (50.00%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 2 (50.00%) |
| Associated Families | 4 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Chitinophagia → Chitinophagales → Chitinophagaceae → unclassified Chitinophagaceae → Chitinophagaceae bacterium | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Environmental → Aquatic → Freshwater → Unclassified → Unclassified → Freshwater → Bacterial And Archaeal Communities From Various Locations To Study Microbial Dark Matter (Phase Ii) |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Indian Creek, Illinois | |||||||
| Coordinates | Lat. (o) | 41.6655 | Long. (o) | -87.5437 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F002009 | Metagenome / Metatranscriptome | 604 | Y |
| F007747 | Metagenome / Metatranscriptome | 345 | Y |
| F031024 | Metagenome / Metatranscriptome | 183 | N |
| F082339 | Metagenome / Metatranscriptome | 113 | N |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209615_1006071 | F082339 | N/A | GEGGQFNDMPDWLQEKIRASKEFATAAGKSTATKVEVDADGNQVPF |
| Ga0209615_1006074 | F002009 | AGGA | MTAPTIQEMGLAAQEIVWRVMGKGSDKSGYGDWLLKDRPTHDYHIARAIRHLATAQMQLHKSSPCPDNNGETSVDHLERALVRSLFVLAQIKKEVTRL |
| Ga0209615_1006077 | F007747 | GGA | MKIGTIKFGKSRPAPKAVIVDVSYDKETEATLFKIGLDLLKKDKEAVIEYVIQKSLAYQLKK |
| Ga0209615_1006078 | F031024 | N/A | MKQALVTQSFGDEWKNIIDLTRPRMEAYCKRHSTDFILIDKPLTHPAQYSKSAIGNIMATKGYDQVTFVDADVLIAADCPKLSDDAGVFCAFDEGAYLDRKPDMVKLAGAFGGVIEPKFYVNTGVFVVHTKAVGVLSMPPIG |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |