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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300025246 Open in IMG/M |
| Scaffold ID | Ga0209646_1000089 Open in IMG/M |
| Source Dataset Name | Arabidopsis root microbial communities from the University of North Carolina, USA - plate scrape CL_Col_mTSA (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) | 189974 |
| Total Scaffold Genes | 155 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 111 (71.61%) |
| Novel Protein Genes | 3 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 1 (33.33%) |
| Associated Families | 3 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales | (Source: IMG/M) |
| Source Dataset Ecosystem |
|---|
| Host-Associated → Plants → Roots → Epiphytes → Unclassified → Arabidopsis Root → Arabidopsis, Maize, Boechera And Miscanthus Rhizosphere Microbial Communities From Different Us Locations |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | University of North Carolina, USA | |||||||
| Coordinates | Lat. (o) | 35.9082 | Long. (o) | -79.0499 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F023378 | Metagenome / Metatranscriptome | 210 | Y |
| F034241 | Metagenome / Metatranscriptome | 175 | Y |
| F039453 | Metagenome / Metatranscriptome | 163 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209646_1000089102 | F023378 | N/A | MKFDAALWPVPANVEIHFYFQCMREPQLYKTRTILDKLMLEVGMFPDRVAMPGDMIPSHFVWAHPGEQPASGVFRRQSGQLAMDLAETDASRPVALSHIVKTLSADRARSNTAIHWIVRESEDLAELSGLDCQYPPRLRSGGTDDGDESREMPLSGQMPLRASQRMPLSPMGMGPTEAWPGVRRR |
| Ga0209646_100008923 | F039453 | N/A | MPATLTSLRADAIRLTHDDVAYEPIVDDASLGALLFALDLLERDAFDLAAMRYADRVTLGPALEAARQYGLVLKRHVDRPNRAAPLLPPGVKIDHAHAWVHAAAVTVPEAERDRFCWRLARRLGDDPWCDGRPAIALANQQFGMFEEGFAEMEARALAEAAVVVEAPESEVSSVPEASSELHGAADPER |
| Ga0209646_100008938 | F034241 | GGA | MSQAKPRQYIGALRAAVSAAKAVNKARAAAYHVLPDGISCKTDWAGWSDPWYDPTPRQQALLDVLQDLLDGGETEVPMIALKTALRLEIRESEIVRSRDNVGTDGESGYFFDDVLHGLYVLDAQETEQVFYSLIDRLMQPRSVRAGPGSR |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |