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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300005591 Open in IMG/M |
| Scaffold ID | Ga0070761_10000004 Open in IMG/M |
| Source Dataset Name | Reference soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire, USA - Hubbard Brook CCASE Soil Metagenome REF1 |
| 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) | 216377 |
| Total Scaffold Genes | 190 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 142 (74.74%) |
| 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 | (Source: IMG/M) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Loam → Forest Soil → Soil → Soil Microbial Communities From The Hubbard Brook Experimental Forest, New Hampshire, Under Manipulated Climate Change Conditions. |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: New Hampshire, Hubbard Brook experimental Forest | |||||||
| Coordinates | Lat. (o) | Long. (o) | Alt. (m) | Depth (m) | Location on Map | |||
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F003398 | Metagenome / Metatranscriptome | 489 | Y |
| F005712 | Metagenome / Metatranscriptome | 392 | Y |
| F011862 | Metagenome / Metatranscriptome | 286 | Y |
| F023651 | Metagenome / Metatranscriptome | 209 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0070761_10000004105 | F023651 | GGAGG | MRYCSRTAFAGREGYVKKDAVVLASRALAVLFVVWALGEASYLPERLHSFLHYMDEGPGPASFIDYRRHYYLIALGFLAVRAVGYSLMARWLYKGGPEVEELLSGAAPQETSVKN* |
| Ga0070761_10000004160 | F003398 | AGG | MPQDSTARAGPGDYNGLIMTDSNIESPSMSEVCARVRHLGYAASGRVRLYGEEFDVVSDPFPEADGIAVHVTTKKDSKIRVLQLPATILQSVRGRVSRAA* |
| Ga0070761_1000000474 | F005712 | AGGAG | MKTIRRFAYAAVLTLSAVSFAPSLAWAQNAAGTFTLAHEVRWQNAVVPAGTYRFATGATGPSELLTLTKVSGSGASFILMVNDTEASKPSEPSQLVVVSTPEGRFVSTMQLPEFGLTLHFTVPTETREMAREVATTASAAR* |
| Ga0070761_1000000479 | F011862 | AGGAGG | MRSRHRSALWFVLPLLAIFALATESRPADKAAVDLSRESIIRIVVQIQRADYEGDRAALKRLHDELTPAPDDNKLASRVLYWRGFALWRRAINGFNEIPTPEDLEEDLTHAVTDFKDAIAREPAFAEPKIGSISSLGYLMYLHRKDPARVQELLQQLSPLLKEATATDSDNPRLLWVLGPIRWSSPPERGGGQDKAFEIYNKGLQAIRNQKRDVSDPLEPTWGEPELLMNLAWSNLNRTTPDLTAAEQYAQAALKIVPYWHYVRDILMPQIRAAQAKPH* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |