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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 | 3300026167 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0114514 | Gp0125920 | Ga0209931 |
| Sample Name | Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R1_B_D1_MG (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 423177540 |
| Sequencing Scaffolds | 9 |
| Novel Protein Genes | 11 |
| Associated Families | 9 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| Not Available | 8 |
| All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Salt Pond Water, Soil And Salt Crust Microbial Communities From South San Francisco Under Conditions Of Wetland Restoration. |
| Type | Environmental |
| Taxonomy | Environmental → Terrestrial → Soil → Wetlands → Unclassified → Pond Soil → Salt Pond Water, Soil And Salt Crust Microbial Communities From South San Francisco Under Conditions Of Wetland Restoration. |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | terrestrial biome → wetland area → soil |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Soil (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | South San Francisco, USA | |||||||
| Coordinates | Lat. (o) | 37.4968 | Long. (o) | -122.1333 | Alt. (m) | N/A | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001506 | Metagenome / Metatranscriptome | 681 | Y |
| F005874 | Metagenome | 387 | Y |
| F046978 | Metagenome | 150 | Y |
| F063375 | Metagenome | 129 | N |
| F073153 | Metagenome | 120 | N |
| F075754 | Metagenome | 118 | N |
| F086685 | Metagenome | 110 | N |
| F097996 | Metagenome | 104 | N |
| F100427 | Metagenome | 102 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0209931_1047598 | Not Available | 1351 | Open in IMG/M |
| Ga0209931_1048314 | Not Available | 1338 | Open in IMG/M |
| Ga0209931_1079565 | Not Available | 966 | Open in IMG/M |
| Ga0209931_1099152 | Not Available | 836 | Open in IMG/M |
| Ga0209931_1124127 | Not Available | 724 | Open in IMG/M |
| Ga0209931_1139359 | All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta | 672 | Open in IMG/M |
| Ga0209931_1175360 | Not Available | 581 | Open in IMG/M |
| Ga0209931_1200010 | Not Available | 533 | Open in IMG/M |
| Ga0209931_1205184 | Not Available | 524 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0209931_1017616 | Ga0209931_10176164 | F100427 | MTEVPLLVWIPLWALIATIGHELTHYIFWVPIATDIEWDVWGNELEIEHIATPWAMRWAIVASMAPLLIGTVVLMYWLSTQPDVTKHSAIMGIGLAIYTFAGGKADYGRLTDAVTTRLA |
| Ga0209931_1047598 | Ga0209931_10475982 | F063375 | MTAVELSDRQVTTIETVGGHLQTVIAYGGVFMGGVIIGFESSDYPMMWPITQSYTGKAVTYPYTQLLEIGIGILAVCVMMIILFEWVVYLHER |
| Ga0209931_1048314 | Ga0209931_10483142 | F086685 | MIDITTIPLVLWVLGCITFVILGHELTHYIAWLPVASSIEYHFEEQYIEAEYPDTPFARKWAVVAGISPVIVATGLLLALIATGWQPTATWHHITASVAVLLYGISGGKSDFDALFNLVRTLRSRAASD |
| Ga0209931_1079565 | Ga0209931_10795651 | F075754 | MISYQAGIRWHTPVNPWEPIHARVDDTSEWYAAQVGRSEYLRDSEEDAEMHHRKGGVVAEGLVKAIFAGMEWWDTHSFDTFLGGTRYDIISRGLNRGEPRQHYVHKIQAKKEERAKPSTHYYAVVRNHPDYWLIGHINSIRFWYLCDRSAPEFWDDEQFDGGFLSYEHFEQLFV |
| Ga0209931_1097279 | Ga0209931_10972791 | F100427 | ELTHYIFWMPIATDIEWDVWGNELEIEHIATPWAMRWAIVASMAPLLVGTVVLMYWLSTQPAVTTHSAIMGIGLAIYTFAGGKADYGRLTDAVTTRLA |
| Ga0209931_1099152 | Ga0209931_10991522 | F046978 | MSKTKKVTVSMTEETKQKAVDLSVLVLGTENISGYISYLINKAHLEAQK |
| Ga0209931_1124127 | Ga0209931_11241272 | F005874 | MRMRARKATMAMIPNMPPDDDLTPAELYDRVEDITNLTVEELQAFKGSDYNEIYNARKSDAAQRKDEPLDDVIRLLSTEPAEWRDVDDGFNEVDEAEELLNFQRRTQAQIASQGLGENYLTEEEDMTMREAASIRWGIDPDDQR |
| Ga0209931_1139359 | Ga0209931_11393592 | F001506 | MNRILYKSRCRCNEEFSITKKRKLSTRREGKPLQYPKPNEVVSKTFQIRYDKKLSPTAKLILNSFQNKYIYYAIDDILYSFKSNSRERENLLAILYSPVLSLQNNFSINFFDIWIHEIYIHEISKVNKFFKNDFSNFEQLNYITIKLLYKTRTPVKKLDSLW |
| Ga0209931_1175360 | Ga0209931_11753603 | F073153 | MPIRDEIRRIDGNIEGILTRLGNQSETIARIDLLVEEMQDMQTELEHIEVRLNTLESRIG |
| Ga0209931_1200010 | Ga0209931_12000101 | F097996 | MAINRDGMHPRYLGWQVDWPIFVKVPFTADGKYWKKSEHFNWAERNLEMKDVASLYAQGFVYHNTELNKANKVGDRLSEMNAEDLKSLVTQLNVIVKDRTSSNQEFNNKKCKQSKIEDKQRGLIRRFLNHNPWITEDFYT |
| Ga0209931_1205184 | Ga0209931_12051843 | F073153 | MSEQDMPVRDEIARIDGNIEGILTRLGQQGESVARLDLLVEEMKEMNQQLEHIEIRLNTL |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |