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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_10000002 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) | 854851 |
| Total Scaffold Genes | 778 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 459 (59.00%) |
| 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 | (Source: IMG/M) |
| 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? |
|---|---|---|---|
| F041295 | Metagenome | 160 | Y |
| F052452 | Metagenome / Metatranscriptome | 142 | Y |
| F058288 | Metagenome / Metatranscriptome | 135 | Y |
| F063832 | Metagenome | 129 | Y |
| F066923 | Metagenome / Metatranscriptome | 126 | Y |
| F072501 | Metagenome | 121 | Y |
| F084432 | Metagenome | 112 | Y |
| F101465 | Metagenome | 102 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0207428_10000002257 | F084432 | N/A | MTEKRLTVILYGCDRAIWRGGPIDLRIADLFAAGGPRPLYEGRSEESTIDLRLQLPFDAGQVYGFTFSAPDHRPAWHLVRRADFIRPAERVELDDVILRLMLMPDAPGASDLPNAFERIRQIGSPFAAAAGGITAETFDALAEPAKMAFLNIEAKLRETSIDGSPLMSFVRGVSHVAVDRVFLRFDPSLKARMARATEFASAPGHAAPKRLPDLPDHPDSWKHVRYAEGNIQLSFSKDAAAMAGASTLAHSADVDIDLGRGLAHAKEWLENNVFRPGHKTNQALVYAQLYAQGILPRYTLDPAPSTTRRAAPTLTLKRVSSKTRGASTRRAVAPRPRRRSVRRPAKRKKSVS |
| Ga0207428_10000002390 | F052452 | GGA | MKKVLALLVVAACALPVFVGAQQADNAKMLQAFSAQARPDWGNLQVILLNDRTVEALFGASPAKAAFRTKARMTSVFFIQGTANKEFELKPEVTVTQKGETLPGKVTPMKNFTGGKVAKGDQLQGLVELPKKLDLYEPFKVTVGGQNVDFNLNDDDVRDYGNR |
| Ga0207428_10000002391 | F041295 | GAGG | MRRRQHAVRKAGRPPGGIDGQRVRDYPQVSIRVPPRLHAQLATLTRTTGLSRLEIFIRAIDCYEGTLRAQRRKQRRKAA |
| Ga0207428_10000002471 | F066923 | GAGG | MKTALFTRGLVVTALLVGTFGATAREAGSAGRAADKDVKLTGCLIRGEGDGAGYLLTNTPTEPWLNAAGQQVTPSALGTSGDYATMFYWLDEDGDLKQHIGHRVEVEGELKGDVKDGEITTERKDNWTDLTVKADGRTMKAHVPNTSIFPASNRDKSRKGDILVRRVDVKRVRMISAACN |
| Ga0207428_10000002474 | F058288 | GGAGG | MFLLNAAAAAIVMTAAATETPAVVVEAPDTPVKITHATVLTVAGDPPVLLYAATNQTDYDLEQFTVIVFMFDAKGILRTEQIAPGRRTLEAKSTKYSSMVIDGGTVDAAGAILVGVNNAQRANSESWWRVDLRPAAEAAVPKKKP |
| Ga0207428_10000002598 | F101465 | GAG | VSAAHFAASLLFGFLSILLPLLAFISMVAACVYVARWWIDRKS |
| Ga0207428_10000002635 | F072501 | GAG | MRVRITRQPLGFVQGLSLKHYRPGEVYELPPSLAEYLVMEQFAIFEMRDRDKTSVPVGQERRRRQ |
| Ga0207428_10000002712 | F063832 | N/A | MPLKQCAVSFTDVRGIRHTADVEAESLYEAAVQGIRRLNQDPWIERIGPGTRLEVEVREPSARHVVSVEQVERWLAGATANPTEATKKKKLKLLLVQR |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |