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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300025944 Open in IMG/M |
| Scaffold ID | Ga0207661_10000001 Open in IMG/M |
| Source Dataset Name | Corn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS C7.1-3L metaG (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) | 937688 |
| Total Scaffold Genes | 847 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 471 (55.61%) |
| Novel Protein Genes | 7 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 5 (71.43%) |
| Associated Families | 7 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Bacteria | (Source: IMG/M) |
| Source Dataset Ecosystem |
|---|
| Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: Michigan, Kellogg Biological Station | |||||||
| Coordinates | Lat. (o) | 42.3948 | Long. (o) | -85.3738 | Alt. (m) | Depth (m) | Location on Map | |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001750 | Metagenome / Metatranscriptome | 642 | Y |
| F002064 | Metagenome | 597 | Y |
| F002279 | Metagenome | 575 | Y |
| F008640 | Metagenome | 330 | Y |
| F061939 | Metagenome / Metatranscriptome | 131 | Y |
| F066879 | Metagenome | 126 | Y |
| F072395 | Metagenome / Metatranscriptome | 121 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0207661_10000001237 | F002279 | N/A | MSSAPSPTAPATADWSRLVADSIAQHGAWHTYLKLVEARSAYPDDLSLRGYTEILRNMIVRDFLAHPKGWHSIPKLTAEFLSNFDRFNLTAQEGYLMSLIDGRLDLQKLLILSPFDQFTTLFTLAKLQHERAITVPQ |
| Ga0207661_1000000126 | F002064 | GAGG | MTAIETTPATLTNQQLNTVFQYTVEAYKTFEKLAENLPNPLTANMFKQFAVDERATRDLIEMKIAATGTSRSKVTLANDLAFQDILEGDLSYRETTEFLIARERTMERKLAELGRGVSAIERAFLVYLGASKRAHIVELERELELTKLDRDWFKREDAESRLVRGAATE |
| Ga0207661_10000001353 | F001750 | N/A | MPKVTAEIPGELSRQIDRMIRDGWFPDQDAIVREALAHFVDAKSFLGDSPRMLHRFAADALNDSKPDVALKFVNRGLSLLPKQDATDFHLYQNMVELRVQILLVLDRTAEALAALEEAREMLPNNPTIAKWIARLNKKSEV |
| Ga0207661_10000001370 | F072395 | GGAGG | MGVCNWCGSAFPLTRSTRKYCTTRCKTNACLGRKPSRIRAAEVEALHELLQAELPSAELFRERLRAIIAPHLPPIVAEGAALVPTLD |
| Ga0207661_10000001389 | F008640 | AGGAG | MDEATRNDIRHIFLSPRPSFALMTAALLIGVSLKELKKEIEDGAIVAVSTRMGQRISKEEMMAVAMRLWDLATIEEALGDEAASVLPEAIRLVELHARIPRYQREMLRWFAKRDETTVDAVLSRELEDVACAHSEELAAAVPGFASALAWPG |
| Ga0207661_10000001621 | F061939 | AGGAG | MNRTRGILAALLVVFATGCFEVEQSIELKRDLSGTASFKLGVDMEPMVIIMAKVQKEMSGDKSPLTKAEIAAAKADFKKKEKKTTETADDPRKQAEGGLPPGVKLLDVAVAEKEFGMTTTMKFAFDKLSSLVGVKLGSKQEEGGDPTKKSVLDSPFKGLEVSETAKTISIHTKPQNPADKVKAETSEQGAPKLDPETEKMMNDAFKNLRVAWKITAPFEVVSSNATRKEGNTLIWEYDFPTLQKLATASPKALDDLGVSVTYKK |
| Ga0207661_1000000165 | F066879 | GAG | VRLGVITLGHVHAEELTALTPFLEHLEQLVLDVPFDDPLSKHRAELNRAVDAATDDWLLIVREREIVDDAIAREITDAMRAQNAWGFRIRSIPMYAGKPLRIGVTDGELRLFHRRHLLRRGELGVQGTVVRLNNVLRSMSFDTVDAHREYLEKNGVPHSLLRRVLLFVHHVAVTRAHDANTLRYLWIEAGFDHG |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |