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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 | 3300026344 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0133548 | Gp0296333 | Ga0256800 |
| Sample Name | Sediment microbial communities from tidal freshwater marsh on Altamaha River, Georgia, United States - 10-16 C5 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 61423343 |
| Sequencing Scaffolds | 36 |
| Novel Protein Genes | 38 |
| Associated Families | 38 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 4 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 4 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → unclassified Betaproteobacteria → Betaproteobacteria bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 3 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 1 |
| Not Available | 9 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfuromonadales → Geobacteraceae → unclassified Geobacteraceae → Geobacteraceae bacterium | 2 |
| All Organisms → cellular organisms → Bacteria | 7 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → unclassified Desulfobacteraceae → Desulfobacteraceae bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → methanotrophic bacterial endosymbiont of Bathymodiolus sp. | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Sediment Microbial Communities From Tidal Freshwater Marsh On Altamaha River, Georgia, United States |
| Type | Environmental |
| Taxonomy | Environmental → Aquatic → Freshwater → Wetlands → Sediment → Sediment → Sediment Microbial Communities From Tidal Freshwater Marsh On Altamaha River, Georgia, United States |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | freshwater river biome → freshwater marsh → sediment |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Sediment (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | USA: Georgia | |||||||
| Coordinates | Lat. (o) | 31.3377 | Long. (o) | -81.4644 | Alt. (m) | N/A | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001965 | Metagenome / Metatranscriptome | 610 | Y |
| F003094 | Metagenome / Metatranscriptome | 508 | Y |
| F004625 | Metagenome / Metatranscriptome | 430 | Y |
| F005277 | Metagenome / Metatranscriptome | 406 | Y |
| F005759 | Metagenome / Metatranscriptome | 391 | Y |
| F005929 | Metagenome / Metatranscriptome | 386 | Y |
| F006247 | Metagenome / Metatranscriptome | 378 | Y |
| F008892 | Metagenome | 326 | Y |
| F009914 | Metagenome / Metatranscriptome | 311 | Y |
| F011453 | Metagenome | 291 | Y |
| F014394 | Metagenome / Metatranscriptome | 263 | Y |
| F016219 | Metagenome / Metatranscriptome | 249 | Y |
| F016687 | Metagenome / Metatranscriptome | 245 | Y |
| F020078 | Metagenome / Metatranscriptome | 226 | Y |
| F020200 | Metagenome | 225 | Y |
| F030231 | Metagenome / Metatranscriptome | 186 | N |
| F031150 | Metagenome / Metatranscriptome | 183 | N |
| F031548 | Metagenome / Metatranscriptome | 182 | Y |
| F035133 | Metagenome | 173 | Y |
| F037757 | Metagenome / Metatranscriptome | 167 | Y |
| F040402 | Metagenome / Metatranscriptome | 162 | Y |
| F053157 | Metagenome / Metatranscriptome | 141 | Y |
| F055831 | Metagenome / Metatranscriptome | 138 | Y |
| F061030 | Metagenome / Metatranscriptome | 132 | Y |
| F063813 | Metagenome / Metatranscriptome | 129 | N |
| F064234 | Metagenome / Metatranscriptome | 129 | Y |
| F068709 | Metagenome / Metatranscriptome | 124 | Y |
| F071793 | Metagenome / Metatranscriptome | 122 | Y |
| F077460 | Metagenome / Metatranscriptome | 117 | Y |
| F082880 | Metagenome / Metatranscriptome | 113 | Y |
| F084792 | Metagenome / Metatranscriptome | 112 | Y |
| F087939 | Metagenome / Metatranscriptome | 110 | Y |
| F092299 | Metagenome | 107 | Y |
| F093076 | Metagenome / Metatranscriptome | 106 | Y |
| F094058 | Metagenome / Metatranscriptome | 106 | N |
| F097602 | Metagenome / Metatranscriptome | 104 | Y |
| F097914 | Metagenome | 104 | Y |
| F099198 | Metagenome | 103 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0256800_1000378 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia | 1413 | Open in IMG/M |
| Ga0256800_1000543 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 1290 | Open in IMG/M |
| Ga0256800_1000643 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 1230 | Open in IMG/M |
| Ga0256800_1001057 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 1085 | Open in IMG/M |
| Ga0256800_1001094 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → unclassified Betaproteobacteria → Betaproteobacteria bacterium | 1074 | Open in IMG/M |
| Ga0256800_1001197 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium | 1048 | Open in IMG/M |
| Ga0256800_1001304 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 1024 | Open in IMG/M |
| Ga0256800_1001534 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 980 | Open in IMG/M |
| Ga0256800_1001928 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 922 | Open in IMG/M |
| Ga0256800_1002023 | Not Available | 907 | Open in IMG/M |
| Ga0256800_1002060 | Not Available | 901 | Open in IMG/M |
| Ga0256800_1002404 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 859 | Open in IMG/M |
| Ga0256800_1003116 | Not Available | 798 | Open in IMG/M |
| Ga0256800_1003589 | Not Available | 765 | Open in IMG/M |
| Ga0256800_1003796 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfuromonadales → Geobacteraceae → unclassified Geobacteraceae → Geobacteraceae bacterium | 752 | Open in IMG/M |
| Ga0256800_1004006 | All Organisms → cellular organisms → Bacteria | 740 | Open in IMG/M |
| Ga0256800_1004585 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria | 710 | Open in IMG/M |
| Ga0256800_1004925 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfuromonadales → Geobacteraceae → unclassified Geobacteraceae → Geobacteraceae bacterium | 696 | Open in IMG/M |
| Ga0256800_1005500 | All Organisms → cellular organisms → Bacteria | 673 | Open in IMG/M |
| Ga0256800_1005611 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → unclassified Desulfobacteraceae → Desulfobacteraceae bacterium | 669 | Open in IMG/M |
| Ga0256800_1005747 | Not Available | 664 | Open in IMG/M |
| Ga0256800_1005947 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 657 | Open in IMG/M |
| Ga0256800_1006466 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → methanotrophic bacterial endosymbiont of Bathymodiolus sp. | 641 | Open in IMG/M |
| Ga0256800_1007058 | All Organisms → cellular organisms → Bacteria | 624 | Open in IMG/M |
| Ga0256800_1007488 | Not Available | 613 | Open in IMG/M |
| Ga0256800_1008225 | Not Available | 597 | Open in IMG/M |
| Ga0256800_1009186 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 578 | Open in IMG/M |
| Ga0256800_1009543 | Not Available | 571 | Open in IMG/M |
| Ga0256800_1012524 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 525 | Open in IMG/M |
| Ga0256800_1012969 | Not Available | 519 | Open in IMG/M |
| Ga0256800_1013315 | All Organisms → cellular organisms → Bacteria | 515 | Open in IMG/M |
| Ga0256800_1013723 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 510 | Open in IMG/M |
| Ga0256800_1014126 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 506 | Open in IMG/M |
| Ga0256800_1014171 | All Organisms → cellular organisms → Bacteria | 505 | Open in IMG/M |
| Ga0256800_1014252 | All Organisms → cellular organisms → Bacteria | 504 | Open in IMG/M |
| Ga0256800_1014424 | All Organisms → cellular organisms → Bacteria | 502 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0256800_1000378 | Ga0256800_10003781 | F064234 | MKTDPTRPRSLREIEMEVEAEGREWTRQRLQQRLQEEADRHGEVFPPQRPAADPSAPPSDAVAHRRRGD |
| Ga0256800_1000543 | Ga0256800_10005432 | F001965 | MRLSIFKVCMGLSFLCVLPAAGFGAEKSYLCAINEVYECVAVTGCSRISLEDANLTPIMLIDVEKKQLRTAPLGGDPRTDDIDSVAVTDKAILLHGNGIKQTDRTWSAVISLETGNVTAGVSTLDSSLSLLGKCTAEP |
| Ga0256800_1000643 | Ga0256800_10006431 | F009914 | MKTEQDIAPLIELLKMAAEQWPSSENGEVSQSELFRRDQALLKMWPEACRRVGLGEREFPRGVIKRWQHEMSGGRPN |
| Ga0256800_1001057 | Ga0256800_10010572 | F071793 | MENRNSNRHKTDQSIVFTFFTSHSFNNAFDGKMKNYCACGLYAELQTRFKDGTVLLARTTSNPTERLPAKIEEGFRSISLVEVKWSKPLSSNGVVYYGTGLKHLAV |
| Ga0256800_1001094 | Ga0256800_10010942 | F004625 | MRVALKDDFRDLAEKNGWSEAFAEGYIDGKAARTQGTQTHRYPVGDLDEYRSGFLAGYSLTREKRCRGML |
| Ga0256800_1001094 | Ga0256800_10010943 | F005759 | MGTVAELKIAGNEGPTPAYINGVADGQSARAEGSSLSLYLQVGIDDYAKGFRAGFFGQMNLGKSLETS |
| Ga0256800_1001197 | Ga0256800_10011972 | F068709 | MASKNKLLVALLAVTVAAAFGLTDNASAAKKLTYEQAYAKCKSIMDKEGTPGTSTQSNVRYTRGAACMKKYGYKL |
| Ga0256800_1001304 | Ga0256800_10013041 | F006247 | MKKAGYLALLLTWTLWTRTISPTSDTWSAAPGLASQDKCLASVKDKLDMWKQFKDAKFEKNTVFFTSNNSSMSYVCLPDGEDPGKAVKAPKPVK |
| Ga0256800_1001534 | Ga0256800_10015341 | F082880 | KKLERAIALGKRVEHFFLALVGADGFPYVNSARHLEQVAEDQFAIEEWICPLTVKHLSENPKMAVLIWDPASDDGYEILGELLMFESQAFLNGFAPEMEENIYLPQVKRRLIIRAEKITAFSHALRCDEIQMLAASKAKVTYSTRDDGDGRREVPLCTFAPEWAEHARYDRSDDPCDDGRAGAV |
| Ga0256800_1001928 | Ga0256800_10019282 | F053157 | MRVDLNKTRDSLHQLNNKVAQVLAYAELMQLSLENEKEKERIKLVIKGALEARDIIAVLMTELPRSEHLTQ |
| Ga0256800_1002023 | Ga0256800_10020232 | F037757 | VQTTIRRYSPFWLSIFAGVALWEIAGRSTSAAFMVPFSETVVRLWQLITRGEFIAQFLDSTQLFLTG |
| Ga0256800_1002060 | Ga0256800_10020602 | F020078 | MRTAIRFRWQSGAIALAAIIFAFVAPGIALCKVVPLATIASAIAITTLVAGLGLYLAGRSIEKRTPQSERVDHYLQASILVTAAGLLWFHLILQTGPWRDRSIEPGTALAIVIICGIAGALLLIRRGKRLAGDRTN |
| Ga0256800_1002404 | Ga0256800_10024041 | F099198 | MADAITAAIGAVIMIGYIWLIAAKLNELPLWICTLAGLACMLWAFWEEDWNPLFSNKS |
| Ga0256800_1003116 | Ga0256800_10031161 | F003094 | MKTATKVIFASALMLSAVAPSLSYASYYVDQTKTWAVENARAQDVTDKMNRHTEGAAQMQSSTQRSGYYGTGNTSVPGIGVDKDDLSPKSR |
| Ga0256800_1003589 | Ga0256800_10035892 | F084792 | MRKLFVSAIALGFLTSPVFAQKQDDDPLVIMEKEKKQRAEELDKQYKRTLNQTRKESDAPRNDPWANMRGSNDGKR |
| Ga0256800_1003796 | Ga0256800_10037962 | F016687 | MKTLKYLSGLMIISTIALCAGSAFAWDTRWQFKQDASSNNYDSGTRDIEMQKKFDSNSMNKFKGTTDRSNGYTVMRNLNGNTMRGYIDKDGSGLLQDQNGTFYRINTRW |
| Ga0256800_1004006 | Ga0256800_10040062 | F063813 | NEEILPIIHKDALMSLVRWSQAHGQKLKPSECESKFQPLAEPSHPSKKPSDQLGSGTGSAPIDETNSIERGLS |
| Ga0256800_1004585 | Ga0256800_10045853 | F014394 | SRVIATFVAAVVWIYAGMSVASRPVAQQAITPSVLDVAATCAIAVVD |
| Ga0256800_1004925 | Ga0256800_10049252 | F020200 | MCWVCERLENLIAGWTEEREFQEQTSSDDYHRGLSKGFSECVRDLAEAVASMRLKRICEKFPVRERSLDDKQRWDILNDVLKLGDEDSNQR |
| Ga0256800_1005500 | Ga0256800_10055002 | F030231 | NIILAVLTFGLLASLGGSATAADLYPYRSYGWRSHVWYGADCCREPFGPGIRVVEQVPYCGDCDNLIGWRTSSNDIRLRYIGYLPWTRGCALGGCYGYYGVYGGCYWKEVPVADGRGDWVRGVEKICN |
| Ga0256800_1005611 | Ga0256800_10056112 | F077460 | MSVVVRPIGLLKAFCRDRLDEQDRVVLPDRNGCTLETVCQEIGLPQGLVSLFIVNGHIEENSYRLQAGDEVKCVAIIGGG |
| Ga0256800_1005747 | Ga0256800_10057471 | F016219 | MVAVTYGVARGPAAKSAERTPAAAPRKSFFTRFMNALVVSRLQHVHREIARHAHLLPRTFDEKGKLLVKTPFSDL |
| Ga0256800_1005947 | Ga0256800_10059471 | F087939 | IGLAEDVATQPLPTAKGHADSLDRPGLGIDVDENRVRRHRVGISTRNVA |
| Ga0256800_1006466 | Ga0256800_10064661 | F097602 | VTILPSEGPSALGRCNCDTLSPKRNSNVDVMNRGSTDEAIVIVKFGANEFMVTWRRVKHRISDRKLEVKGGTCKRPWPLIKDQRTEISLTGAVDYLRRKQ |
| Ga0256800_1007058 | Ga0256800_10070581 | F031150 | MAEFIIDADGHIMEDHKDIFAHIKGNFAEMNWHSTWPMFDADGWQRGLARKGKREDPD |
| Ga0256800_1007488 | Ga0256800_10074881 | F005929 | MRENMSLLSFWGLVFSLIAVTLFVVIYSHQKNKYANQKIVEDLRRRSVGVYLAANTPEAASDSKKFREASNEIERLRAETRVLFWLIIAMNTAVIIIFILAYRYF |
| Ga0256800_1008225 | Ga0256800_10082251 | F005277 | QAELEKAKSTKEFFKDAYWKCLATEIVRVVPTSMSVQEFSVLVKRACPKERNDFFTSLSNYIVMLQPDVDRSTVAPAANIAVLDAQKDAVQALIDLRSGKRKL |
| Ga0256800_1009186 | Ga0256800_10091862 | F055831 | MQAIADLKALVLEMLGGAFQGGDVQATQQMGVNMTNAVKREGVVIIQNQNVEVYARIMPSMVKMLKLCDSLESNWRSQAVIEIAPQQNQLPAPADDANTDPIERCCSWLFENH |
| Ga0256800_1009543 | Ga0256800_10095432 | F011453 | MRIRFAVTTAIVAGAGVLSACTGNRSEQDARRDFQRSVADYEYCVAANQMSTCESERRIMKAKKRVLSATMQRLSR |
| Ga0256800_1009761 | Ga0256800_10097611 | F092299 | IRTTIDLSAKPVEVYAYVVEPATGPMVAHARDVVEVTKDDARVSGFTTKRGTVKYVTQAPPHLLEGEYQQKRARTRYDIRLEAISDTRTRVSIDVNIQPQGLRTKLQGPLPRLRVKGQLNDWLEQVQQHFEVKQK |
| Ga0256800_1012524 | Ga0256800_10125241 | F031548 | VKTNIMKIFAIATLMIFIGAGVSMADGWKGNGGNRGHAYGHYRQMEYHHYYAPRPVYVERQYYPVVVERHIYHPPVVYQAPMPNGYFFGMSVMEPGIGFSFGVNGR |
| Ga0256800_1012969 | Ga0256800_10129691 | F035133 | MANIFTDWTSRAAVAARIAEEQQNPVESWNELVAPEDYDLSFDRNEYQIRPAKWPWLVHI |
| Ga0256800_1013315 | Ga0256800_10133151 | F093076 | NYLWAAYIVVWVIHCGYILTLVSRSKRLERERKELGRN |
| Ga0256800_1013723 | Ga0256800_10137232 | F040402 | MTKNIIRVNSAVAAAVAILISACSTTHLGWLRISPDVNRAFETLHVSPDYRYWYLYLENTPYAVLGLSREYRFEDIQWTEVEPGSEVFQKVVGLVQDFPVPGSRTYGAYIVNEKGDQIGVWYSSMGAGITIDPDAKVVFI |
| Ga0256800_1014126 | Ga0256800_10141261 | F097914 | TGDVANGYLTLQQGSLPAVALTPPYSILAKRQGFRDVIKTSDVIPVSPTTGLVTTKEKLEKETAKVRRVIRAVFRAVDFARNRRADMVQFIVKQYKMEKDVSESVYDAIMETLNPTLSLTDQEIQIELNRIAEQTKMKVTAKPAELVDFTLTRQVGAELGR |
| Ga0256800_1014171 | Ga0256800_10141712 | F061030 | CKDVYDKVACGCALQNGGRIIPPPVGVKREGLKLRPREGQEPTQTLDGGRVAFPKYFRREGFKVHRSRALEGYVACMHSNGRK |
| Ga0256800_1014252 | Ga0256800_10142521 | F008892 | MAQDEKIKEAQEILNWAIANVNGSIKCKVLDHKYGDYHVQFFNKENKLIMPTQIPEGWVRGSNPKQNLIHDNLKMLLRNLENYQ |
| Ga0256800_1014424 | Ga0256800_10144242 | F094058 | MQILLNIIFYAFLAWLFYDSTVVEHDPWFAFVVGFVIVVAIIVQLMPGLHASKVSPGEFPYDTIGD |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |