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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300019768 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0129088 | Gp0217626 | Ga0193960 |
| Sample Name | Microbial mat bacterial communities from the Broadkill River, Lewes, Delaware, United States - FB_3_MG |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 352043296 |
| Sequencing Scaffolds | 11 |
| Novel Protein Genes | 12 |
| Associated Families | 11 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Synechococcales | 1 |
| All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta | 1 |
| Not Available | 8 |
| All Organisms → Viruses → unclassified viruses → unclassified DNA viruses → unclassified dsDNA viruses → Prokaryotic dsDNA virus sp. | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Microbial Communities From Sediments And Microbial Mats In Various Locations |
| Type | Environmental |
| Taxonomy | Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater Microbial Mat → Microbial Communities From Sediments And Microbial Mats In Various Locations |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | freshwater river biome → river → microbial mat material |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Water (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | USA: Delaware | |||||||
| Coordinates | Lat. (o) | 38.7906 | Long. (o) | -75.1644 | Alt. (m) | N/A | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001488 | Metagenome / Metatranscriptome | 686 | Y |
| F003471 | Metagenome / Metatranscriptome | 485 | Y |
| F008795 | Metagenome | 328 | N |
| F012917 | Metagenome / Metatranscriptome | 276 | Y |
| F034579 | Metagenome / Metatranscriptome | 174 | N |
| F041807 | Metagenome / Metatranscriptome | 159 | N |
| F061006 | Metagenome / Metatranscriptome | 132 | Y |
| F064509 | Metagenome | 128 | N |
| F073262 | Metagenome | 120 | Y |
| F093843 | Metagenome / Metatranscriptome | 106 | Y |
| F096759 | Metagenome / Metatranscriptome | 104 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0193960_1058150 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Synechococcales | 1035 | Open in IMG/M |
| Ga0193960_1077198 | All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta | 874 | Open in IMG/M |
| Ga0193960_1092392 | Not Available | 788 | Open in IMG/M |
| Ga0193960_1124223 | All Organisms → Viruses → unclassified viruses → unclassified DNA viruses → unclassified dsDNA viruses → Prokaryotic dsDNA virus sp. | 664 | Open in IMG/M |
| Ga0193960_1129584 | Not Available | 648 | Open in IMG/M |
| Ga0193960_1131745 | Not Available | 642 | Open in IMG/M |
| Ga0193960_1131931 | Not Available | 642 | Open in IMG/M |
| Ga0193960_1137078 | Not Available | 628 | Open in IMG/M |
| Ga0193960_1167786 | Not Available | 562 | Open in IMG/M |
| Ga0193960_1186844 | Not Available | 530 | Open in IMG/M |
| Ga0193960_1206807 | Not Available | 502 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0193960_1058150 | Ga0193960_10581501 | F041807 | MARLELTLNFPKSFEIKTFSVKSEKKLSPLAKLILQSVQFKHF |
| Ga0193960_1077198 | Ga0193960_10771981 | F001488 | MARLELTLNFPKSFQIKTFNVKSEKKLSPLAKLILQSVQFKHFYYVRDDISYLLKSNPIERDFLLQALYSIVISLQNNLSINFFDMWVYEIYINKVSTQNKFMSQKSQNLEPGEYITIKLAYGSSVSQEKK |
| Ga0193960_1092392 | Ga0193960_10923921 | F096759 | IRTFELQTNYLDEEDPWKGILSAAVFAVRSTYHTTLQKSPGQLVFGRDMILNIKHTANWEYIRQRKQRLIEKNNRAENAKRKAHDYQVGDRVMLRKGSENKYEQPYSGPHPIQQVHKNGTVRLQIGAVTETVNIRRIEPYHEPPDPIHGGECSMRISRKRRRTRPR |
| Ga0193960_1124223 | Ga0193960_11242232 | F093843 | VAKKLKDIPTFTKQFWKKLGDETADRIRVHTTKGGKDVNNKPFEVYSTKYRTRKASGKFKRQSSTSSKVDLQLTGDMMRNLQTRGFSRDNVVIGWSGANAQKIQWNDDMGRTVTSKSKPVTNKIEKFIFKEVDLAIARNAKEAT |
| Ga0193960_1129584 | Ga0193960_11295841 | F034579 | HGIVRRAYTKTFNVDLLTEFRMEQINMNPKVELPPVPELGDLDVSAVKRQQYLLS |
| Ga0193960_1131745 | Ga0193960_11317451 | F061006 | QSPKDRANDIDNTLTWLRNRGVDEPKDEDSPFQKTQSIPLPDKRSPEQKAKDLDDVLSWVRNPKENEDNPNVPDFEKVDQMLPKKPGQTPEDRAKDIDNALTWVRNRGVDQPEFDDTKPFSPMKSIPIDKRTPEQKAKDVDAILNWQRNPKENESPETEPFRKIDQMLPKKPGQSPKDRANDIDNTLTWLRNRGVDEPKDEDSPFQKTQSIPL |
| Ga0193960_1131931 | Ga0193960_11319313 | F003471 | HKEITMKDKTTYQQPKPCPVPDFAGYPDKVANTQTNKIKGSGAATKGTGFSKRTA |
| Ga0193960_1137078 | Ga0193960_11370781 | F073262 | HHANNCLEGLRAPVGIATQPLALQSATKTMGTNLNASLNRPKALAALQDKCPMLVASLLAVCEVATAAALPMHWSKVHATLKSAEWAACHARASDTAGSEIDKPAPLMPPPMALDLGNGRFATSSTNNPNEGMSVFCIRPSCMPSRQEHQDRNRMFEVLAQGVGAASFEVQQMALIDDEFELPQSSEEFRGCNNGHQVLSRAFLGMHS |
| Ga0193960_1167786 | Ga0193960_11677862 | F012917 | LFKFLRFPLNDCGNYEKYSSFSEVNQAWDRKKHLRRKRWSQE |
| Ga0193960_1186844 | Ga0193960_11868441 | F096759 | IRTFELQTNYLDEEDPWKGILSAAAFAVRSTYHTTLQKSPGQLVFGRDMILNIKHTANWEYIRQRKQKLIEKNNQAENAKRKAHDYQAGDRVMLRKGSENKYEQPYSGPHPIQQVNTNGTVRLQIGAVTQTVNIRRIEPYYAPPDPIHGGECSMRLSRKRRRTAPR |
| Ga0193960_1206807 | Ga0193960_12068071 | F064509 | KTNIYGDYRICCKCGMKADVIENGNDSCASCYFKHHTNTTIEENEKRNKEIDIERERKRNEKS |
| Ga0193960_1206807 | Ga0193960_12068072 | F008795 | MKKVKLESNEIELALNVAAKRFIGNVKMGKGFSYGYQGDYKKQLGDSFLGALGEVAYAKSSNSFYNGSYTDNLERYNDSDFQNNIEIRTQEKKIIIFYXLDLVRRKED |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |