Basic Information | |
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IMG/M Taxon OID | 3300026040 Open in IMG/M |
GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0111376 | Gp0116082 | Ga0208144 |
Sample Name | Natural and restored wetland microbial communities from the San Francisco Bay, California, USA, that impact long-term carbon sequestration - MayberryNE_TuleA_D2 (SPAdes) |
Sequencing Status | Permanent Draft |
Sequencing Center | DOE Joint Genome Institute (JGI) |
Published? | N |
Use Policy | Open |
Dataset Contents | |
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Total Genome Size | 91546494 |
Sequencing Scaffolds | 38 |
Novel Protein Genes | 42 |
Associated Families | 42 |
Dataset Phylogeny | |
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Taxonomy Groups | Number of Scaffolds |
Not Available | 13 |
All Organisms → cellular organisms → Bacteria | 5 |
All Organisms → cellular organisms → Bacteria → Proteobacteria | 1 |
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria | 1 |
All Organisms → cellular organisms → Bacteria → Acidobacteria | 2 |
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 6 |
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes | 2 |
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 1 |
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 1 |
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 3 |
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → Gemmatimonadetes → Gemmatimonadales → unclassified Gemmatimonadales → Gemmatimonadales bacterium | 3 |
Ecosystem Assignment (GOLD) | |
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Name | Natural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration |
Type | Environmental |
Taxonomy | Environmental → Terrestrial → Soil → Wetlands → Unclassified → Natural And Restored Wetlands → Natural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration |
Alternative Ecosystem Assignments | |
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Environment Ontology (ENVO) | terrestrial biome → wetland area → soil |
Earth Microbiome Project Ontology (EMPO) | Free-living → Saline → Water (saline) |
Location Information | ||||||||
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Location | USA: Antioch, San Francisco Bay, California | |||||||
Coordinates | Lat. (o) | 38.052509 | Long. (o) | -121.76873 | Alt. (m) | N/A | Depth (m) | 0 | Location on Map |
Zoom: | Powered by OpenStreetMap © |
Family | Category | Number of Sequences | 3D Structure? |
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F002062 | Metagenome / Metatranscriptome | 597 | Y |
F002521 | Metagenome / Metatranscriptome | 552 | Y |
F003710 | Metagenome / Metatranscriptome | 473 | Y |
F004159 | Metagenome / Metatranscriptome | 450 | Y |
F004784 | Metagenome / Metatranscriptome | 423 | Y |
F006289 | Metagenome / Metatranscriptome | 377 | Y |
F006314 | Metagenome / Metatranscriptome | 376 | Y |
F007326 | Metagenome | 353 | Y |
F008098 | Metagenome / Metatranscriptome | 339 | Y |
F008145 | Metagenome / Metatranscriptome | 338 | Y |
F010067 | Metagenome | 309 | Y |
F012278 | Metagenome / Metatranscriptome | 282 | Y |
F014243 | Metagenome / Metatranscriptome | 264 | Y |
F017881 | Metagenome / Metatranscriptome | 238 | Y |
F018536 | Metagenome | 234 | Y |
F021486 | Metagenome / Metatranscriptome | 218 | Y |
F025062 | Metagenome | 203 | Y |
F025964 | Metagenome | 199 | Y |
F026848 | Metagenome / Metatranscriptome | 196 | Y |
F027235 | Metagenome / Metatranscriptome | 195 | Y |
F028732 | Metagenome | 190 | Y |
F034408 | Metagenome / Metatranscriptome | 175 | Y |
F036159 | Metagenome | 170 | Y |
F041267 | Metagenome / Metatranscriptome | 160 | Y |
F041457 | Metagenome | 160 | Y |
F042046 | Metagenome / Metatranscriptome | 159 | Y |
F045310 | Metagenome / Metatranscriptome | 153 | Y |
F054771 | Metagenome | 139 | Y |
F055037 | Metagenome / Metatranscriptome | 139 | Y |
F055698 | Metagenome / Metatranscriptome | 138 | Y |
F059254 | Metagenome / Metatranscriptome | 134 | Y |
F059323 | Metagenome | 134 | Y |
F061612 | Metagenome / Metatranscriptome | 131 | Y |
F069627 | Metagenome / Metatranscriptome | 123 | Y |
F075384 | Metagenome / Metatranscriptome | 119 | Y |
F085179 | Metagenome / Metatranscriptome | 111 | Y |
F085478 | Metagenome / Metatranscriptome | 111 | N |
F086537 | Metagenome / Metatranscriptome | 110 | Y |
F086923 | Metagenome | 110 | N |
F087632 | Metagenome | 110 | Y |
F091541 | Metagenome / Metatranscriptome | 107 | Y |
F106176 | Metagenome / Metatranscriptome | 100 | Y |
Scaffold | Taxonomy | Length | IMG/M Link |
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Ga0208144_1000003 | Not Available | 20522 | Open in IMG/M |
Ga0208144_1000110 | All Organisms → cellular organisms → Bacteria | 6983 | Open in IMG/M |
Ga0208144_1000961 | All Organisms → cellular organisms → Bacteria | 2983 | Open in IMG/M |
Ga0208144_1001487 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 2427 | Open in IMG/M |
Ga0208144_1001545 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria | 2389 | Open in IMG/M |
Ga0208144_1002148 | All Organisms → cellular organisms → Bacteria | 2055 | Open in IMG/M |
Ga0208144_1004184 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 1494 | Open in IMG/M |
Ga0208144_1004551 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 1440 | Open in IMG/M |
Ga0208144_1005389 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 1327 | Open in IMG/M |
Ga0208144_1008595 | All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes | 1062 | Open in IMG/M |
Ga0208144_1009819 | All Organisms → cellular organisms → Bacteria | 992 | Open in IMG/M |
Ga0208144_1013357 | All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes | 859 | Open in IMG/M |
Ga0208144_1014335 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 831 | Open in IMG/M |
Ga0208144_1017793 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 753 | Open in IMG/M |
Ga0208144_1017844 | All Organisms → cellular organisms → Bacteria | 752 | Open in IMG/M |
Ga0208144_1018089 | Not Available | 747 | Open in IMG/M |
Ga0208144_1018131 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 746 | Open in IMG/M |
Ga0208144_1018858 | Not Available | 734 | Open in IMG/M |
Ga0208144_1019114 | All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → Gemmatimonadetes → Gemmatimonadales → unclassified Gemmatimonadales → Gemmatimonadales bacterium | 730 | Open in IMG/M |
Ga0208144_1019398 | Not Available | 725 | Open in IMG/M |
Ga0208144_1020653 | Not Available | 705 | Open in IMG/M |
Ga0208144_1022064 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 685 | Open in IMG/M |
Ga0208144_1023021 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 672 | Open in IMG/M |
Ga0208144_1023108 | Not Available | 671 | Open in IMG/M |
Ga0208144_1025289 | Not Available | 644 | Open in IMG/M |
Ga0208144_1026159 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 634 | Open in IMG/M |
Ga0208144_1026358 | Not Available | 632 | Open in IMG/M |
Ga0208144_1027088 | Not Available | 625 | Open in IMG/M |
Ga0208144_1030620 | All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → Gemmatimonadetes → Gemmatimonadales → unclassified Gemmatimonadales → Gemmatimonadales bacterium | 592 | Open in IMG/M |
Ga0208144_1031229 | All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → Gemmatimonadetes → Gemmatimonadales → unclassified Gemmatimonadales → Gemmatimonadales bacterium | 587 | Open in IMG/M |
Ga0208144_1031514 | Not Available | 585 | Open in IMG/M |
Ga0208144_1033516 | Not Available | 569 | Open in IMG/M |
Ga0208144_1036083 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 551 | Open in IMG/M |
Ga0208144_1037696 | Not Available | 540 | Open in IMG/M |
Ga0208144_1040929 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 521 | Open in IMG/M |
Ga0208144_1041414 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 518 | Open in IMG/M |
Ga0208144_1042517 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 512 | Open in IMG/M |
Ga0208144_1043860 | Not Available | 505 | Open in IMG/M |
Scaffold ID | Protein ID | Family | Sequence |
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Ga0208144_1000003 | Ga0208144_100000323 | F091541 | MARTSIVSKPQHRYGDSQAKVRRVPFGLGEAPGTVGAAEKCLRCSFGNIPVVEEVVWTIPLPLTASEALATFGETVNLLSGSSSVPGVASIDSTFLINGILQTDILAQGIGVHVFCEPMSFSTIGNAFNAPNAPLGSSPPSPDVFTLFDIAAGALGPDINTDANDPNFFPAVFEFGGPVWRAGWNFINAYQFQWKTSQRELVLNELAADVSYFGSFADAMASGTSEVPIIEFVALVNAVYRSKGSGTIFLPVSFRRVGSVTTDNPVAGGTNVGIFHPTRDFDLAPVTWGGLRWQGYGCRGQMYRPVESPCFLERGIPIGMLFNSQDAVHQAQMMEALTIDNEPFGTNVSPDENVGGATSGGGGTATMLEQTLDAVPVYAPQIVNVDRQIFKGGILKIAIKIKGWEMPGGWKAYCAQNMPQVLSPAPASA |
Ga0208144_1000003 | Ga0208144_100000324 | F034408 | MQPKNQNVKNLAIYSPRIAYGMIVGVPRVPVVVDVPIQFSSSTVNAPPVEASFDNNLTQDTMIERVSFNLFQQNSFPGSPFQSLYFNQLKQSGQTGVGINMQVFGGPKYAINDGFTDLGNLVDVFATTWPEGWPLARQSNVRVRAILTQTPTSVPFNILITFLGWQFLDKSIDDLSDEDCRARLRKLGIETPEVASLLKA |
Ga0208144_1000003 | Ga0208144_100000330 | F061612 | MKLIHEETMCCGYKRCPKIRIFEDGSVEISDDDPQEGSVGTIKLKPRTADRLVELLSERM |
Ga0208144_1000110 | Ga0208144_10001104 | F085179 | MRILISKRKKAKSLREIAIFLLLTYFAMGAGLVDSSVLCLGEDGHLAIESAASCAYCGVRALLPVPPESLNLEANPAPGCGPCQDFSIASGREFPSIALPSPPGSARGDLAFPSMEPAEGSRTSIASASSVSVPLEIPDPIALHARTVALLI |
Ga0208144_1000961 | Ga0208144_10009613 | F014243 | MKELKLDVQALEERIAPSVIGTGGYDGQPGNQCNAGQNPSGSANPEGTANPEGTSS |
Ga0208144_1001487 | Ga0208144_10014873 | F021486 | MARIAEERLDAVREYLHHGFPDWALAERWDGEHEAHTFLLKKPREPLHLLKVSRAVLDDCGPRKLTGLLEGRQVAHALRKAEHHRLMLTARGLDPI |
Ga0208144_1001545 | Ga0208144_10015453 | F086537 | VLSGNDEGGGELLAQWLKEAGRRAQSKGKASEGAASDADDTFNSPASLHRYLEELAGRKLQTHAEVLAFLKEVAGGQPQGHRDHERRRMVREVALIVLLAISYLHFYYWEVQLQIAALKGVPVLVPAPTAQPSKIRS |
Ga0208144_1002148 | Ga0208144_10021482 | F002521 | MDAVKRYKFLLLLSIALNLIVGVIIFVSPDSFTRFTGQPEAFPKAWPRHWGMQLWAIDFLYLPGYWDPRTHRWPNWCGIVIRLTFSLFFFSQGDGFTPMGIYDGLSGLILLATYLPVDRSRARKA |
Ga0208144_1004184 | Ga0208144_10041842 | F087632 | MPRVLVATSNAGKLRDFAGVAALHGVQVEGVPDLDSLPP |
Ga0208144_1004551 | Ga0208144_10045513 | F054771 | EDLNLDELKRRLKEGDYLEISTGGGAYEVWAEPFASPPAVYYEGEQHPIAELDRIADKIMGELRKGEIRCRWVADD |
Ga0208144_1005389 | Ga0208144_10053891 | F041267 | QGYLEALNKIDIASGPNSPCASLAARTERQTATAGKVSGFELVSGLEKFYSDPANVQVPIGNAIRIYLLQASGKDQTTIQELIETARVLGATAARRPQQ |
Ga0208144_1008595 | Ga0208144_10085952 | F002062 | VAGVQARLKSEHQRKYPDLTSSGWYDVAPIFPGVTQRMVNMAGERLTRLATPRGYVIIRADHLDFRPVPRSAHESEPIG |
Ga0208144_1009819 | Ga0208144_10098192 | F008098 | MRFILGVVVGAGLTLGSAYLHDTGRVKVGPPQPIVNWDTLVGMLGR |
Ga0208144_1013357 | Ga0208144_10133571 | F045310 | VRKTREQVWRELDALGEDQVRERLAAKPTEVEEPALVHEWLLRQERVNSALADTSSQIAAREAGLGGSVKRVVGSAVLLGVAAVALGFLLARRKH |
Ga0208144_1013357 | Ga0208144_10133572 | F026848 | MMRSLLLVLLLLPTLARSVVAQSDRWQLTLDDDQYVWDIRLVRLEGDSLVIRQSDSLVRVPLGHVNEVRLIRGARVEVTGGAATAGAMSALMGGDDEIYDLAPLEP |
Ga0208144_1014335 | Ga0208144_10143351 | F069627 | MDLTDEDAFPIYMRISDKVLHLRRLGMTYTNIAEHLGINPWMAKKAVRWGNVQKA |
Ga0208144_1017793 | Ga0208144_10177931 | F059254 | MKVLATRRYPGPAFDELDDVEVAALESLTDSRPGIEALVAGNETV |
Ga0208144_1017844 | Ga0208144_10178441 | F055037 | GLDATFQGSSGYERAERHVEGLQRSGVRYSFRQELGGAWTIRFGPISASEVSTALTAFVQ |
Ga0208144_1018089 | Ga0208144_10180891 | F085478 | MTTCISNIMEKQCNKFNEINKLSIVFGQVLIIMFLISFLYSHNNVYAQSETPVNAESIQVIKDPEKEVPSLTVSLGDQEVEMDPFMYSQINFTNKIKGSQLNDSEDNIVTKISPAKLYETQSDIDTKLNLKHGDKITISYEKQPLTIKAYLIDYDTEDETEIYPIKQIDLSTFSIPTNSPAGLK |
Ga0208144_1018131 | Ga0208144_10181311 | F027235 | MDSYVVRIYRRDGKKFRILIGTVEAAGSGRKMAFSNNEELWEILRRSRLRKEVMSAGEVPDVEGPAEGARQTKPTIEP |
Ga0208144_1018858 | Ga0208144_10188581 | F012278 | KSLICIYTNKDKNEFAIGLKEDENFRAMTKADEFYTRFVDAFDQLIDKNSIDWEHELKNWIAAAKKNETIFVEVDLTGHNEVSDRKLSE |
Ga0208144_1019114 | Ga0208144_10191141 | F025964 | QNLEIKYPFADTKPPFDFALGRPNGEVWLQRPRAEEDAPHTYDVFDRKGSWQRSIEFPKGAALAGFGAKGAIYASIKESDGGRTVGRFRFR |
Ga0208144_1019398 | Ga0208144_10193981 | F006314 | MTSSKLQAALDELERLNETVRGYTARNGKLPSPDSDAGRAVSLLETFAEELKRLNIGRLEYATL |
Ga0208144_1020653 | Ga0208144_10206531 | F059323 | MFGTTLTTRWNWQKLFSYGEVVCFISAWAVGLLVAMQGEQPHHDRIHTRNFASATDSLAINTNLQR |
Ga0208144_1022064 | Ga0208144_10220642 | F003710 | MLIKGMTAEEIRVLQEFRRIGVESLSLDAIKAIKHPAGGGEAPARSLVIKGYLEADPQNGTFSLTPRGKEFLAYEPKPEFEETSGGSAEAAAK |
Ga0208144_1023021 | Ga0208144_10230212 | F086923 | MKAMELTEELVEALEGVAFLDPPLFDEAQLPLQQRVVDKLADMMYASDMVLDLFRDERYSVPPHLLAMEPEVQRLYDDINSLMKRLAD |
Ga0208144_1023108 | Ga0208144_10231082 | F004784 | MEDNKLKFVVRGRKEGDKFVLEGITNYILQNLDSFDDKTIIVTFEKPVSTNTIKLDTGNLFN |
Ga0208144_1025289 | Ga0208144_10252891 | F018536 | IQICSIYTEGKYMKNSVIAIQSFVIVTIVYALLVPVFFEMDNDFGEEKNFVDDGNYETTYSQQLVDSECQSPCPSSAEMCIAMCA |
Ga0208144_1026159 | Ga0208144_10261592 | F010067 | MTDERSDEARKTFEMLSNEYAQALHAFKAIEDQSTTLMLLGVGDDLRGFIDQFIEMAVKMKQVAEEKGEPHFAEWFGELIEKAEALRGAIPKR |
Ga0208144_1026358 | Ga0208144_10263581 | F025062 | MHKSILTFGLLASSLVMLVVMPFLNNNNSFLANTAMAQGYYDDDSYSTYPTDDNKYECQTGPLEGFFVSSVEFCKHVNFNDKDDRKDNRTGTQGPPGPAGPQGIQGIQGP |
Ga0208144_1026407 | Ga0208144_10264072 | F036159 | MAEQPVPSRQRFRTLASESAIAIEADDLLVLARRYAEQGMYDESIHLYEMAEKLKPGSVALRINLARVRDQKRAAEEARYASVRQEVDAERARDEIDSTQYVGLAQYYIAKDETAKAIELLEIAKLKTPNNYRPFEVLGRLYFSQGEWDPA |
Ga0208144_1027088 | Ga0208144_10270882 | F055698 | MRCQNSTDTNRRCERTASKIAIVKDVIEKQSKFWICDDCFNEKLYNNKSFKDNLIKVVEVNSKKXVSLLLIAKYF |
Ga0208144_1030620 | Ga0208144_10306202 | F006289 | RSHHRRRLAFLNPPIERRRPRIQMEDYAARHSIDHTLDRKAELRRLAPGNPQAAARYHQLLTYELHGLRELVATLQATAGGRDLHECLAESRTEIERLEIEVAWCASLPTMESAADAR |
Ga0208144_1031229 | Ga0208144_10312291 | F041457 | PPRGRIPPDDGEELPHPGERLPFETPEAVLEPQPGTDPAAERRGRPGRPHLVVVTTRAATPGDQAPPGTVLLSRFWHPALHRWSENSFESLEHAMHLFLNESGWVLRQQQRLEGPHAHELIFEARREDFSRPSTEEMLHDVGLTAEDVADMMDRVDRENGGPE |
Ga0208144_1031514 | Ga0208144_10315142 | F075384 | MSKHDEQSRTKTPEQQPKKPVPSKDVELGVEELEEKIAPMKFNA |
Ga0208144_1033516 | Ga0208144_10335162 | F106176 | MGQLDQTGLLTLQELMITALATAETVAKILIEKGIVTKKEFDRKLFSERANCQAILQQVSGTSVDA |
Ga0208144_1036083 | Ga0208144_10360832 | F004159 | MQPGNEDSPLHEKASKLADDFAEHGPEAILDEIENLLPEAWREHIARFPIAAILLGFGVGIWLGMKKGDELIAAGTSFVTSAAMANVNQVLDRFGSQNA |
Ga0208144_1037696 | Ga0208144_10376961 | F028732 | VGPLLMSIGDLLHPEERMLPVEQIAAVVDHASRWYIAHLLLFVGILLFIPGFLGLTALTALLRPVVGYTARILIMIGTAGFASIVTGEMLASRLVLDGVGTAAPISLWTNLFMGPVGAAVGPAVLAFFVGTIMFAIPLLRGSKRLRYPVALMVIGVLFVLAEILTARVVFSQIGNIVVLC |
Ga0208144_1040929 | Ga0208144_10409291 | F007326 | MQKVNLGSVIEQAITRVTQNRIGEKPAVFVTLSPALTQVPWKDSALKQFLQFFLYESLLTSDANAAVEISLRRRSLLKDLTAFVGIQPSYWVQLRISGRGLKVAEKLVEDLFDEVGYRCEEWVGVEGSSARLGIFGAIDAPKLKMVICLESSRQRLKCDLLLP |
Ga0208144_1041414 | Ga0208144_10414142 | F017881 | VALFFHSDDVDQLIPFKEAVQITEFALRDLVSPKGVNAPRKRLNLHRDIGEASFDTVLNIYAGGSANYGAIGAQVALHRKAIAGNTQQRPPFNPDQTELALIYDTNTGSLLGIMAHRPR |
Ga0208144_1042517 | Ga0208144_10425171 | F008145 | VVDQQLQAALQSVQADVNAITFLPHIKKLIGELEHDLVPDTKPAAADASSLKNAIKTVERGKSQVDILNALLEEAVRFGSRAAVLILRGETFSGWKGLGFSTHGGNDEAVKRFNAAPGLVPQLDQVLRHEHVVVWDGNNLSSRLGVSGSAKAILVPMVIKDKVAAAVFVD |
Ga0208144_1043860 | Ga0208144_10438601 | F042046 | MRNLFALLALIGIAGVVLGVLSLLHTPYGQSGPLPFTVEYTGGPGSIIAGFTLLAASLYLRTAWRRRD |
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