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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300031649 Open in IMG/M |
| Scaffold ID | Ga0307514_10000179 Open in IMG/M |
| Source Dataset Name | Populus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 16_EM |
| 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) | 179648 |
| Total Scaffold Genes | 223 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 152 (68.16%) |
| Novel Protein Genes | 10 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 9 (90.00%) |
| Associated Families | 10 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → Pezizomycetes → Pezizales | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Host-Associated → Plants → Roots → Unclassified → Unclassified → Ectomycorrhiza → Soil And Ectomycorrhiza Microbial Communities From Populus Trichocarpa Stands In Riparian Zones In The Pacific Northwest, United States |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Washington | |||||||
| Coordinates | Lat. (o) | 46.6253 | Long. (o) | -120.532 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F004778 | Metagenome | 423 | Y |
| F004891 | Metagenome / Metatranscriptome | 419 | Y |
| F006048 | Metagenome | 382 | Y |
| F008531 | Metagenome | 332 | Y |
| F010438 | Metagenome | 303 | Y |
| F046750 | Metagenome | 150 | Y |
| F048690 | Metagenome | 147 | Y |
| F060560 | Metagenome | 132 | Y |
| F063295 | Metagenome / Metatranscriptome | 129 | Y |
| F081952 | Metagenome / Metatranscriptome | 113 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0307514_10000179108 | F004778 | AGG | MGARLAVRLKNVLNHFECTNSCLFGITTDNVSSNYSMTHELQSTFEASGIECPELRNHIPCMAHGIQLALGAFMSSLSVKGSTKSWEAEEHNQQFGENESIDIGKSQKLRKEGNDRINHVLAIRPGLAKTIEKVCIS |
| Ga0307514_10000179115 | F081952 | AGG | MVNALKKNLSPLLAGKYGKSPKQSTRRHHHANEGKSGLEAERVRALGALRSLRSKMKLLAKK |
| Ga0307514_10000179127 | F008531 | AGGA | VHGAHHTAGFDAFMSSLGVKGRTKSWEAHERNQQFGENESINLRKSQRLRKEGNARMNKVSAMRPDWATIIEKVHIS |
| Ga0307514_10000179174 | F010438 | GGAG | MWNRRPFMSASDLETVSYATQRVAKALAEAPHWQIIETYWNTAMQQNNIWSIAFEARTREILKEVC |
| Ga0307514_10000179207 | F004891 | GGA | MIAQASGFKMGVGRFSSPLRGVGVLAMPDAGLDTTRLIESLCMVPLGAGVIRLLLPGVAVRVIIDHRCVADGVEVTH |
| Ga0307514_10000179210 | F046750 | GGA | MINEKDGHIPLPLIMFTCTALRHALLEWQKNKGVHPKASKSKLKPDRPDSSNYFNYKNDGGKIASCCAVLGRKLLTSFSVVDTYTFLMNTWNTLQDSYQQRVYNNTLATVNRQIQHAENPSPAVVISMEAVRVDNAILLDYLACEVALEEPEIGRTDLNIPIDNNCTDDELHFGMPVGSGDYEYKRDESDDRNAIPTAS |
| Ga0307514_1000017928 | F060560 | GGAG | MNNGVHLKASKSKLTVDRPDRLNYFNYKWNGGKKASCCPATVRMLFTLPGVVDRYIFLMSTKITLPESYQQRVYQISLATVKHQIHQAENPTPAVVISVEATCVDNAILLHYFTSEVPHKGPEIRSTDPNIPIDNNCMDDLLHFEIPGGCGDYYNEGDKSYECAAICTVSRQ |
| Ga0307514_1000017940 | F063295 | N/A | MCRCAGRQSWCGGDQWNDCLWVKECPGRCYGALNGRLPCHLQRLFKMKLLNKDGAFVEYWLAPELTTISDNSGNLDPISKFVQVRTALAAVAFQGFNMENIVCCVHVIPEIPTSSKTGVDWNER |
| Ga0307514_1000017955 | F006048 | AGGA | MHKGDLERGMLKQWPTLDITSSNWYQVRAQVDMVQSYFIQSARDHLTELFDLHCFESDAECLEFIESRLADNRYLFPIAEWVEGVVHSPNPMQRESKAAIESPVSTVLPGGSNPTVNLRQILSSGQ |
| Ga0307514_1000017980 | F048690 | GAG | MLQDMDNMEASCVFYVMVGMFTHLEQSKTSRLTVNKTGIVRLTVQHDLIVSISFLYYPGDSLRQTSADVLSLEQCHIYNRQ |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |