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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027853 Open in IMG/M |
| Scaffold ID | Ga0209274_10000010 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 (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) | 233547 |
| Total Scaffold Genes | 225 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 173 (76.89%) |
| Novel Protein Genes | 9 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 8 (88.89%) |
| Associated Families | 9 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae | (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? |
|---|---|---|---|
| F001247 | Metagenome / Metatranscriptome | 737 | Y |
| F001893 | Metagenome / Metatranscriptome | 621 | Y |
| F002248 | Metagenome / Metatranscriptome | 578 | Y |
| F005191 | Metagenome / Metatranscriptome | 409 | Y |
| F005538 | Metagenome / Metatranscriptome | 397 | Y |
| F017174 | Metagenome / Metatranscriptome | 242 | Y |
| F028256 | Metagenome / Metatranscriptome | 192 | Y |
| F032731 | Metagenome / Metatranscriptome | 179 | Y |
| F071443 | Metagenome / Metatranscriptome | 122 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209274_1000001010 | F028256 | N/A | MGRQLSHLLGAAGTLLTALLWLALLNPSRADRLVDSLAGPQHEYKMVLGTAVFATVLAFVPAIRGSKWWYVGVVLSSGTLAFFTYHLSA |
| Ga0209274_10000010103 | F071443 | GAGG | MFGVFFSILVVVALLSILGEIVMRVRLTRRASSDKIAWWRRGGDEVSATYGEVFPDSSLPFFRRFIFWLVVACAGALVFSVLWRSS |
| Ga0209274_10000010164 | F017174 | GGAG | MFSWENPGDRLSIAEMNSELQHAQLELISAHCATHQLRLRYTPENLARYGQRDILRKSVQAAAALCEYYASIEKKIPEAEAVSEPLTRLNEKQIRDAVERVAAYLAQQREQYMVSAESLTNQQKAMMWPYFSAPLLDRVKVVELHGTRVPDPPFFEEARSMGFVNLPEFAHMDSLTFLDVVVFNDKLTARALFHGLVHSVQFEVLGLERYANLFVRTFVDTKFHFSVPLEAHALSLESKFAANAAHRFSVEDQVRLWVKQARY |
| Ga0209274_10000010165 | F005191 | GGA | MLHTMAKKPEKYKGTRPPRILVPNKERALFTVDAKKMVGVIRRLSLTGGSAVLSGGPISEGTLAEMDLSTVFGKVSAQIQFMHTGADGTPTAQAFRFIDMDGVSSKRFSAAVKQMEKAGFSDVEGKENAFGNLTSLTLGKLRDSLRTLSGAVVPGGTSKS |
| Ga0209274_10000010177 | F032731 | GGA | VAFRFEFDPVNKILLARFEGQLTNESAEAYHYALGKNWAATNARTGIWDLSAVTEFTLASDFLRNLAMRKPVTPGLTDHPRFIVVPETAGYGLMRMFQIVGESSRPGLHVVRTVEEALKTLGVRSPQFEPLEHRGGS |
| Ga0209274_10000010200 | F001893 | AGG | VPAAGRRNFETMGTLKALAGLLAIILVIVACFEVAPPMMANYSFQDDLRTVALMDGANFQKTDDDVRNDVIRKAKEHELPIDPKQVTVQRMTTPGLAAVYVAVDYSVTVSLPGYSFDMHFNPNSGNK |
| Ga0209274_1000001035 | F001247 | GAGG | MKTKTWTVIANTGKQADLESGLEKKEVQKPTHISARDFIHWIAPDSHIDDASLRSLFKL |
| Ga0209274_1000001045 | F002248 | AGGAG | MDRRRQKRVFVELPVQIWGLDAHSRPFTQPASLRTISGRGATLQCVDAQLKPGDIVDVLYQGTKAQFRIVWCGKPGTEMAGEVGLENLSADTMPWGVDPLRCAASVGQG |
| Ga0209274_1000001076 | F005538 | AGGA | MDFQVHEQTYFLSLAEDEKQWEVFVATPDGPLPIPVYVDAAEGRPVVVLQEEKHRMPN |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |