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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300027842 Open in IMG/M |
| Scaffold ID | Ga0209580_10000011 Open in IMG/M |
| Source Dataset Name | Surface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen04_05102014_R1 (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) | 423464 |
| Total Scaffold Genes | 370 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 259 (70.00%) |
| 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 → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae | (Source: IMG/M) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Unclassified → Unclassified → Surface Soil → Surface Soil Microbial Communities From Centralia Pennsylvania, Which Are Recovering From An Underground Coalmine Fire. |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Pennsylvania, Centralia | |||||||
| Coordinates | Lat. (o) | 40.7999 | Long. (o) | -76.3402 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000157 | Metagenome / Metatranscriptome | 1872 | Y |
| F005076 | Metagenome / Metatranscriptome | 413 | Y |
| F014108 | Metagenome / Metatranscriptome | 265 | Y |
| F031671 | Metagenome / Metatranscriptome | 182 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0209580_10000011141 | F000157 | AGGA | VPAKTLPSVLSQVVEAKAEYDIRLLAQQLGTSYRSLMYWIRGDRHLPAYLLPRICVLLGNYEALDLLESQAGRVGFKIPDPKQPSEEQFRAISALIKDVGEALESIANTMADGVVEERELAVTIPKLDAVIQECASLKYWLEHVRQQGKRKARK |
| Ga0209580_10000011226 | F005076 | GGA | MHTISADASLLLIMATDAAVRMRREWLQRAGYKVSPACSLKDVEQACTSGRFDMVLVADGVDQRMKKAIGLTVRQHFPEAPILQMGRYQPDIDGTCFVTGDSQEDILRSVDQILRRDEIRPAAI |
| Ga0209580_10000011285 | F014108 | GGAGG | MKRTTTVLAALLFFSFAAVTLHAQTVTACLAHHFKYIEGQFEVTYEHGCVGHDEPELDPVSSAPGSARDLTWNVVLPSDGTSLVSDVGPTFWFGGTVTDPKSLFNQSFLELQFYPDSLVKNCFSNGAFSVSFSPNTYTACSPVFRLTSVGQGKFKETAAFNAMLTDGTGNSNPLVMHAGDSVSVHFFTTAAQDGFHITVTDQTTGGSGTIVLNSAPSGPLMPAFDTQQIGNALGWGAVFDTPNAFVWEIGHASIFSGGDAFCTPGQTFCDSYNAASWAGFSPIQIQSVTFGDGSSPEAFAAVSDQGGKAEVAATCATYGGPFCIYPWFTLSSSGAYHYGIDYPDTKKDFGQANQFSPTLQCGGPFGPDSTYCATILK |
| Ga0209580_10000011289 | F031671 | GAG | MPITVRLWGLDRDGKVFSQNVKTLNIATSGARLFGVTAQLERGFIVGLQCGNMRARFMVVWVGEMGTPREGQIGLRVAENGLWSVAMPRAADEDYMTWLAENYLDEPAEYA |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |