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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027907 Open in IMG/M |
| Scaffold ID | Ga0207428_10001887 Open in IMG/M |
| Source Dataset Name | Populus root and rhizosphere microbial communities from Tennessee, USA - Rhizosphere MetaG P. TD hybrid SRZTD1 (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) | 21316 |
| Total Scaffold Genes | 46 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 32 (69.57%) |
| Novel Protein Genes | 8 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 6 (75.00%) |
| Associated Families | 8 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Populus Rhizosphere → Populus Root And Rhizosphere Microbial Communities From Tennessee, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Tennessee | |||||||
| Coordinates | Lat. (o) | 35.8444 | Long. (o) | -83.9599 | Alt. (m) | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F006592 | Metagenome | 369 | Y |
| F020730 | Metagenome | 222 | Y |
| F021124 | Metagenome | 220 | Y |
| F025065 | Metagenome | 203 | N |
| F031549 | Metagenome / Metatranscriptome | 182 | Y |
| F062892 | Metagenome / Metatranscriptome | 130 | N |
| F085876 | Metagenome | 111 | Y |
| F103534 | Metagenome / Metatranscriptome | 101 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0207428_1000188714 | F020730 | GGAGG | MASKRRKGRPRKTGPRHKNGHLKTVMAESPRERAARMPHRRGLGEASSDPAAESELGRMRLRGEVSEPEATAGEVYARMWRGYVATLSAPRAPGVAQGAISACMGCPSPSDRKWCICDLRRRIYAEAASVLVQTGSGVSPTVHAVVILDRQCPFSSLGLLKLGLTALAKHYGLLTSQPKRPYQKQRSEIVAPAK |
| Ga0207428_100018872 | F062892 | GGA | MSTEFNRCWPWLEASLNEFGATHTKDQVWEAICRGAILWPGEKAVILTTMVTYPIGIRCCSVWLQGGELEELKTMYPMIEKYARAQGCDWLIGWGRDGWVKVMPGWVSCGTRRKKVLTE |
| Ga0207428_1000188722 | F103534 | GGAGG | MGTNGNGTNPTTKDSQAIERLQAVAEAATAASSVEDFLSRAEAALQLLEVIGRELGSAGGADEREIIAFAEGQRSDLHAFVRKLLSRHRRRVGDLERILGVRAEG |
| Ga0207428_1000188727 | F025065 | N/A | MTPKQHFRRLQLRLEIAEYGMGMPLDRERVKELREQVEQARKDAERMDSDGFTEQAGGY |
| Ga0207428_100018874 | F031549 | GAGG | MTDTYTMDEEMAPDDATEPGEASEPGEGAKQSQQEANYREGNPQRSCGLCGYFDSKGHSCDVVEGDISPFGYSDRYQRQDNPFREGETEGFKGGTKVAVNTPVTAMAGPLGSIVPPSGLLQIGRKTYGEA |
| Ga0207428_1000188740 | F006592 | GGA | VTQDRVIGIVVGFTTVAITLLVLGQFERAAEGRVPFDCFDPTERERVRELALKGIDDGLQGAISHLYSIWQKDPDSDQPKRAQVGVANAINAHARARKFTLAWQPPTCPPEK |
| Ga0207428_1000188745 | F021124 | N/A | VRLVAIPLTEHEAWAHHWLPFLPRIAKRSHESVADLIGQIRRREARLVLVMDGEIAQALIGVRVHQMNGKNCGDIIWTAGFGREQWQTLIPELEQMLRDAGCVMCRPICRPGWSRYLKTRGYRMKHIIMEKPL |
| Ga0207428_100018878 | F085876 | GGA | MSNLPMHTMRQHHYPRLRGYEVGADGEVTVHLCLGLPCCGLDLLIEHPASMTALELYQIAGEFVQMQQRVKQLPAFQQCNLPPS |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |