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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 | 3300019712 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0129088 | Gp0217635 | Ga0193969 |
| Sample Name | Sediment microbial communities from the Broadkill River, Lewes, Delaware, United States ? BRT_5-6_MG |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 107443621 |
| Sequencing Scaffolds | 40 |
| Novel Protein Genes | 40 |
| Associated Families | 36 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium | 3 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 2 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 1 |
| Not Available | 22 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 2 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Synechococcales | 1 |
| All Organisms → Viruses | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 2 |
| All Organisms → cellular organisms → Bacteria | 1 |
| All Organisms → cellular organisms → Archaea → Euryarchaeota → unclassified Euryarchaeota → Euryarchaeota archaeon | 1 |
| All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → unclassified Caudoviricetes → Caudoviricetes sp. | 1 |
| All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Microbial Communities From Sediments And Microbial Mats In Various Locations |
| Type | Environmental |
| Taxonomy | Environmental → Aquatic → Freshwater → Sediment → Unclassified → Sediment → Microbial Communities From Sediments And Microbial Mats In Various Locations |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | freshwater river biome → river → sediment |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Water (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | USA: Delaware | |||||||
| Coordinates | Lat. (o) | 38.7906 | Long. (o) | -75.1638 | 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 |
| F002682 | Metagenome / Metatranscriptome | 537 | Y |
| F003361 | Metagenome / Metatranscriptome | 492 | Y |
| F003471 | Metagenome / Metatranscriptome | 485 | Y |
| F004928 | Metagenome / Metatranscriptome | 418 | Y |
| F005819 | Metagenome / Metatranscriptome | 389 | Y |
| F010065 | Metagenome | 309 | Y |
| F012678 | Metagenome / Metatranscriptome | 278 | Y |
| F012917 | Metagenome / Metatranscriptome | 276 | Y |
| F013895 | Metagenome / Metatranscriptome | 267 | Y |
| F018289 | Metagenome | 236 | Y |
| F020094 | Metagenome / Metatranscriptome | 226 | Y |
| F021441 | Metagenome / Metatranscriptome | 219 | Y |
| F022317 | Metagenome / Metatranscriptome | 215 | Y |
| F023596 | Metagenome | 209 | Y |
| F024806 | Metagenome / Metatranscriptome | 204 | Y |
| F026571 | Metagenome / Metatranscriptome | 197 | N |
| F035554 | Metagenome / Metatranscriptome | 172 | N |
| F040603 | Metagenome / Metatranscriptome | 161 | N |
| F041807 | Metagenome / Metatranscriptome | 159 | N |
| F044508 | Metagenome / Metatranscriptome | 154 | Y |
| F058634 | Metagenome / Metatranscriptome | 134 | Y |
| F064729 | Metagenome | 128 | Y |
| F065688 | Metagenome / Metatranscriptome | 127 | N |
| F070125 | Metagenome / Metatranscriptome | 123 | N |
| F074892 | Metagenome / Metatranscriptome | 119 | Y |
| F074893 | Metagenome / Metatranscriptome | 119 | Y |
| F079647 | Metagenome / Metatranscriptome | 115 | N |
| F080060 | Metagenome / Metatranscriptome | 115 | Y |
| F080061 | Metagenome | 115 | Y |
| F084254 | Metagenome / Metatranscriptome | 112 | Y |
| F087950 | Metagenome / Metatranscriptome | 110 | Y |
| F088283 | Metagenome / Metatranscriptome | 109 | Y |
| F090988 | Metagenome / Metatranscriptome | 108 | Y |
| F092076 | Metagenome / Metatranscriptome | 107 | Y |
| F105203 | Metagenome | 100 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0193969_1001513 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium | 2081 | Open in IMG/M |
| Ga0193969_1003884 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 1449 | Open in IMG/M |
| Ga0193969_1007186 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 1139 | Open in IMG/M |
| Ga0193969_1007328 | Not Available | 1130 | Open in IMG/M |
| Ga0193969_1008273 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 1077 | Open in IMG/M |
| Ga0193969_1012050 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria | 930 | Open in IMG/M |
| Ga0193969_1014516 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae | 867 | Open in IMG/M |
| Ga0193969_1015752 | Not Available | 840 | Open in IMG/M |
| Ga0193969_1018806 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 786 | Open in IMG/M |
| Ga0193969_1021411 | Not Available | 748 | Open in IMG/M |
| Ga0193969_1026620 | Not Available | 687 | Open in IMG/M |
| Ga0193969_1029112 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Synechococcales | 665 | Open in IMG/M |
| Ga0193969_1031166 | Not Available | 647 | Open in IMG/M |
| Ga0193969_1032596 | Not Available | 637 | Open in IMG/M |
| Ga0193969_1032948 | All Organisms → Viruses | 635 | Open in IMG/M |
| Ga0193969_1035373 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 618 | Open in IMG/M |
| Ga0193969_1035971 | Not Available | 615 | Open in IMG/M |
| Ga0193969_1037982 | Not Available | 603 | Open in IMG/M |
| Ga0193969_1039429 | Not Available | 595 | Open in IMG/M |
| Ga0193969_1041254 | Not Available | 586 | Open in IMG/M |
| Ga0193969_1043061 | Not Available | 576 | Open in IMG/M |
| Ga0193969_1043271 | Not Available | 575 | Open in IMG/M |
| Ga0193969_1043521 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 574 | Open in IMG/M |
| Ga0193969_1044983 | Not Available | 567 | Open in IMG/M |
| Ga0193969_1049155 | All Organisms → cellular organisms → Bacteria | 550 | Open in IMG/M |
| Ga0193969_1049432 | Not Available | 549 | Open in IMG/M |
| Ga0193969_1049626 | All Organisms → cellular organisms → Archaea → Euryarchaeota → unclassified Euryarchaeota → Euryarchaeota archaeon | 548 | Open in IMG/M |
| Ga0193969_1050133 | Not Available | 546 | Open in IMG/M |
| Ga0193969_1050849 | Not Available | 543 | Open in IMG/M |
| Ga0193969_1051418 | Not Available | 541 | Open in IMG/M |
| Ga0193969_1052139 | All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → unclassified Caudoviricetes → Caudoviricetes sp. | 539 | Open in IMG/M |
| Ga0193969_1052489 | Not Available | 537 | Open in IMG/M |
| Ga0193969_1053017 | Not Available | 536 | Open in IMG/M |
| Ga0193969_1053649 | Not Available | 533 | Open in IMG/M |
| Ga0193969_1054873 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium | 529 | Open in IMG/M |
| Ga0193969_1059651 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium | 515 | Open in IMG/M |
| Ga0193969_1059911 | Not Available | 514 | Open in IMG/M |
| Ga0193969_1060320 | Not Available | 513 | Open in IMG/M |
| Ga0193969_1060489 | All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales | 512 | Open in IMG/M |
| Ga0193969_1064997 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 500 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0193969_1001513 | Ga0193969_10015131 | F004928 | MSQALHSIESEPNHTVEIVVHITETLGEQQRGDLVAALEGNGGIATAEFCPLRYHLILVKYDRDLYSSQDVLERVTSHDVSARLIGPV |
| Ga0193969_1003884 | Ga0193969_10038842 | F074892 | MATMTAKYASIVLLGLLLSGCAEKGENVYKSWVGPDRPNMAIVTLRLGDDVRDITVRERVLPRSEYGTLLLVPGQYTLYEDDGASIGITIRPVLINTEKARANGELILGHTYTLRAGKSKDGGERALWIEDARSGEVFIDTR |
| Ga0193969_1007186 | Ga0193969_10071862 | F074892 | GLLLSACSERGENVYRTWVGPDRSNMAIVTLRLGDDIRDVTIRERVLPRSEYGTILLVPGQYTLYEHDGASIGISIRPMLVNVEKARANGELILGHTYVLHAGKSKETGERALWIEDARSGEVFVDRR |
| Ga0193969_1007328 | Ga0193969_10073282 | F088283 | MKTRALILLTSLGVFSGCATGSDVTGSYSPSCVAFEGNTIELSENRFTWDKFTDEVTVDDTGNEVDPFPGLPVRGVYAIEDDVVSLTTDVGELAAELYIVRRPGQVYLLTESEFEAWQKDSTVPDCALLLGSGE |
| Ga0193969_1008273 | Ga0193969_10082732 | F010065 | VRGESGISFTGLYICGVISLVMLVLKLSVMDAWSWWRVMLPVGLIVGFTVTNMVVAFIYLSFAHIPERPDGDEAELLEPHTINVHYVAAMLFFVVFGDNLVRWIDGSETSYWFWLMSGKVEVLAAFGVLSVLALFAYWLRLGRVLKASD |
| Ga0193969_1012050 | Ga0193969_10120502 | F001488 | MARLELTLNFPKSFQIKTFNVKSEKTLSPLAKLILQSVQFKHFYYVRDDISYLLKSNPIERDFLLQALHSIVISLQNNLSINFFDMWIYEIYINKVSTHNKFMSQKFQHLEPSEYITIKLAYGSNVSQEKK |
| Ga0193969_1014516 | Ga0193969_10145161 | F084254 | IVIEILAEVIRQSKRHPRADQVASALAMRGLPIAEKDVMTIFDQYDIEKKIADSH |
| Ga0193969_1015752 | Ga0193969_10157521 | F064729 | VISKCSKIHKDSKIHKKAYAELSGYLNSVEECANVGELDATVLWAVRFMQRMHELEKEIGLHVLEKRVHSTHKE |
| Ga0193969_1018806 | Ga0193969_10188061 | F090988 | IVMAGVAAQMLAGKDIKNVDARYITEQMAAQNYPIGSSNTIRNSLLQYQQILIQQARTNLRSKYPEPVQLNSINYPT |
| Ga0193969_1021411 | Ga0193969_10214111 | F074893 | PSRLYAIADNGSLTIRISGPMDLLLTSALRECCHDTATDYSRYIVDFQDVSIVRDSGLALLLMLKRLANRTGATLHVINGNTDLMHRCYKLGIQSASL |
| Ga0193969_1026620 | Ga0193969_10266201 | F003471 | YQQPKPCPVPDFAGYPDKVANTQTNKMKGSGAATKGTGFSKRTA |
| Ga0193969_1029112 | Ga0193969_10291123 | F041807 | MARLELTLNFPKSFEIKTFSVKSEKKLSPLAKLILQSVQFKHFYYV |
| Ga0193969_1031166 | Ga0193969_10311661 | F024806 | MVTNSDFNFTNNEAVILELPFSEHIEELRQRLFHIFWIILFLTCTAFIEVKLLVKILELPVDN |
| Ga0193969_1032596 | Ga0193969_10325961 | F074892 | DLTRKTPVAPIMVAMKIVSAAIVMSGLLLSACAEKGDGIYRTWVGPDRSNMAIVTLLLGDDVRDVIIRERNLPRSQYGTILLVPGNYVLYERDNASIGITIRPALVITEQAKANGELILGHTYTLQAGKSKESGKRALWIEDARSGEVFIDAR |
| Ga0193969_1032948 | Ga0193969_10329482 | F021441 | MKKIKHNDLLPWFIQDHGTLPASYLKSCRSFFDSIKLQASSIKPQASNQKNLHKPGTRVKNRFNRKI |
| Ga0193969_1035373 | Ga0193969_10353732 | F026571 | VGTKYVTTDTEDKAIEHTQEMLDHIHKSLNMQVFSIVEVTETK |
| Ga0193969_1035971 | Ga0193969_10359711 | F044508 | VVIKTNGSDKTEIKKKLKISGHQQRWPRPLPGDMLTF |
| Ga0193969_1037982 | Ga0193969_10379821 | F018289 | MTQFTRSQLNLLRKQLQETIDNANLSDITIDVGNCSYSGGEATFKVKCILKGAKTREQIDLAYYAEMHGIDTTAIAKLQGEDMSIIGYKSRARKKPWILQRLRDGAEFVCSDHTAKQFFKKREEIADAT |
| Ga0193969_1039429 | Ga0193969_10394291 | F023596 | RMASKSLQVSLFVCAVLIALLFLKLMFDMNSSMREMTGHVGAISQDVSEMQNSMNSMNESMLRMEQSIHGLGQAFSQGSKQFQQMNPAGMMQQVLPGSDQRTR |
| Ga0193969_1041254 | Ga0193969_10412541 | F035554 | MAAKFLEDYVGVDDLIKQMNEQYPEGRLVSEIVEKTDKMVVFKTSFYTKDNVSPKCTGHGSKYSTEDHWLEKAEQKSRGRCLRVLLGSEPTAEEMEGIVPSKTATPNKKSLDEKVKDLEAEGLVEDISMKAQAVMDNIKDFAMEITNQDLDLARNYTAQALGSMGMSKTEVSINNLQS |
| Ga0193969_1043061 | Ga0193969_10430611 | F065688 | MTIEEDIEHLKRHDSFNRFIDLIKQMREECIAEMHEVPTDKLQQLSGRILSYDQIITMADWAETSSSE |
| Ga0193969_1043271 | Ga0193969_10432712 | F003361 | MKLTLNGALDLSRSINSQTIWNKRSTDYFNQLAKELKQDSLNALENKPSPRSQAGRGNKNTGATRRSVFTAKLGNTNRLRMSEGFKLATDRPYAPFIHGKPIFRGFSPIRRTRPFFPPYKEGSSLAKWAKRGQPKMNPFLVARAISKRGLKMK |
| Ga0193969_1043521 | Ga0193969_10435211 | F058634 | TLATPPSGPNEQIDTVDVSFYCEGIDPVLGVPRPAQSSPETFTINTSTSQGPEPYNTIGLFEKQGLPAGPCHFDFFAVSNTGNTECTGELTLVVSTDMTTSFEVVLACIHTPRYGGVRSDGSFNQCAEYRQILVTPTTQAIGNLVDVRTEVYDPDGDDVTVGVQAVGACSNVEFSNGDTAASCETVSGCD |
| Ga0193969_1044983 | Ga0193969_10449831 | F012917 | KFLRFPLNDCGNYEKYSSFSEVNQAWDRKKHLRRKRWSQE |
| Ga0193969_1049155 | Ga0193969_10491551 | F080061 | KLKRQLFGILNFGRCDLPFDLTQGGGERVEPFGICVLLFEIFYY |
| Ga0193969_1049432 | Ga0193969_10494322 | F070125 | SAIDNRRWYSHRHEPTQLFDTDPVTTAEQRRQWIEALHAYQDDSERLFGLVASLANLLDRTLVVETMESVLGITAVHDGDCVIFDDLAIRFGSDDRVKSVFRTIGGSGTGN |
| Ga0193969_1049626 | Ga0193969_10496263 | F002682 | RRYIMPQIGSDEKPVTFRSPIYKNTHGSKGANPRPGFYTQEYKDNWERIFGGKNAKKENNSEKND |
| Ga0193969_1050133 | Ga0193969_10501331 | F022317 | MSTIKIDTKTLAPIVITALLSAFGWVFNSIEEIKTHQNACDAMVLEMNSELDMLESNFTELL |
| Ga0193969_1050849 | Ga0193969_10508492 | F079647 | MKFYFLHLFKILPPTLKVSWGFFLIGFLALTVALFTATSWQSYGGLGCLVVGYVVFIIDGVNPNRTKDDAGRAGFYGGLIGTTLAGLIGAIVSALILAIVFGVTSLIDKSIPLTVMQSLHIVGVLFAFLV |
| Ga0193969_1051418 | Ga0193969_10514182 | F005819 | QQVGESNIDFKRFQYYLGLGASRSYEKVSNNFTITDRRVKQIAAKNQWQDRIKAINKMLNEQIISEVFAQVGETARDLAEELKPIIFKVINEINERDLASMNPTELKGILDICYKIISQIYGLGQPQVTVNHIEQPQIRFKWDWEQDDEPDY |
| Ga0193969_1052139 | Ga0193969_10521392 | F040603 | MMYYTKHKTLADTSETALFTVPAGYVLWVNYIFIANHGGSTNNVSCWWENGAGVDQLYFLDNNSLNSGAKEILGGQADAPIFVLHNGDVVKAQTGSAGDVEIAFTFKLMNEPAAFPNFNG |
| Ga0193969_1052489 | Ga0193969_10524893 | F013895 | MKLGKNNFVVTFKTEKEVSDYIGMHIPEEQRLLWLGFFIANNYIAQRLEDDGVELKKXVEDPGQQWP |
| Ga0193969_1053017 | Ga0193969_10530171 | F092076 | MFSHKIDKLQEIIFIRASGTPTTVTMIDHIQSVLNDPDYDPKYNSIIVLEENTHIAGVPTEKIELIRRVLDGYAQQRKGRHWAVVAPNERQEAFLKLNLELISPVKLKIRIFKSEEDALNWLKGR |
| Ga0193969_1053649 | Ga0193969_10536492 | F044508 | VVIKTNRSDKTEIKKFFLKISGPQQRWPRPLPGAILIPPALLVVADS |
| Ga0193969_1054873 | Ga0193969_10548732 | F105203 | MQQANHAEQMVKRFRELVEDAGDTLADSHYSELKLIIEAGLDTALLENMEKVSKQLSSLAHDIQHNADFFD |
| Ga0193969_1059651 | Ga0193969_10596511 | F023596 | MTSKSLQALLFVCAGVIALIFVKLMFDMSRSMSKMTEHVGAISKDVNEMQNSMHTMNESMLRMEESIHGLGETFSQGSKQFQQMNPAGIMQQVLPDSGQRTR |
| Ga0193969_1059911 | Ga0193969_10599111 | F080060 | CFACSFVRPLGRMYPGPQVELMSRRLRGFTLACRFLCSVVVAGPLIYVSFVSDGDAYHFLALVLLAPVAGLVLMANSLFCLFRYRHLESPWMGLGFALVGVTGVLVAWHFLPQFRM |
| Ga0193969_1060320 | Ga0193969_10603202 | F012678 | MLNQHSLEEIAEIHNLLIDLKKEYEEGIKPILIKNSSVIFRNLHTIPKL |
| Ga0193969_1060489 | Ga0193969_10604891 | F020094 | YYLRXLLLFVFTNLHNLTVKTNYFISYLFFAFFNNQKLISYVITINLSPTNTLINVKTIKGNPRFFYSAGMCNLQKKQKIRQPKAIITILRALLLKTKLFKTKPVAVHFNNLFFNHQTYILKKLKQKIFTKLVTSYTCFSHNGCRLKKKKRIKIRTRKFSKEXLSGLKWQ |
| Ga0193969_1064997 | Ga0193969_10649972 | F087950 | MQCWINGPATGGIDDKIKMAIILLKTNIPAFHHSIIPFS |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |