Basic Information | |
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IMG/M Taxon OID | 3300026013 Open in IMG/M |
GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0111376 | Gp0116069 | Ga0208534 |
Sample Name | Natural and restored wetland microbial communities from the San Francisco Bay, California, USA, that impact long-term carbon sequestration - Browns_TuleC_D1 (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 | 50441257 |
Sequencing Scaffolds | 17 |
Novel Protein Genes | 19 |
Associated Families | 19 |
Dataset Phylogeny | |
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Taxonomy Groups | Number of Scaffolds |
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 1 |
All Organisms → cellular organisms → Bacteria | 3 |
Not Available | 9 |
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → Methanosarcinaceae → Methanosarcina → Methanosarcina barkeri | 1 |
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 1 |
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → unclassified Pseudolabrys → Pseudolabrys sp. FHR47 | 1 |
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 1 |
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: Browns Island, San Francisco Bay, California | |||||||
Coordinates | Lat. (o) | 38.04565 | Long. (o) | -121.866287 | 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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F001213 | Metagenome / Metatranscriptome | 746 | Y |
F017538 | Metagenome / Metatranscriptome | 240 | Y |
F018388 | Metagenome / Metatranscriptome | 235 | Y |
F025096 | Metagenome / Metatranscriptome | 203 | Y |
F029789 | Metagenome | 187 | Y |
F031074 | Metagenome | 183 | Y |
F037795 | Metagenome | 167 | Y |
F039157 | Metagenome / Metatranscriptome | 164 | Y |
F047544 | Metagenome / Metatranscriptome | 149 | Y |
F047749 | Metagenome | 149 | Y |
F060885 | Metagenome / Metatranscriptome | 132 | Y |
F063135 | Metagenome / Metatranscriptome | 130 | Y |
F064701 | Metagenome / Metatranscriptome | 128 | Y |
F070289 | Metagenome / Metatranscriptome | 123 | N |
F078852 | Metagenome | 116 | Y |
F086136 | Metagenome / Metatranscriptome | 111 | Y |
F090606 | Metagenome | 108 | Y |
F092520 | Metagenome | 107 | Y |
F095849 | Metagenome / Metatranscriptome | 105 | N |
Scaffold | Taxonomy | Length | IMG/M Link |
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Ga0208534_1001012 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 1389 | Open in IMG/M |
Ga0208534_1001423 | All Organisms → cellular organisms → Bacteria | 1213 | Open in IMG/M |
Ga0208534_1002370 | Not Available | 1020 | Open in IMG/M |
Ga0208534_1004019 | Not Available | 859 | Open in IMG/M |
Ga0208534_1005337 | Not Available | 783 | Open in IMG/M |
Ga0208534_1005539 | All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → Methanosarcinaceae → Methanosarcina → Methanosarcina barkeri | 774 | Open in IMG/M |
Ga0208534_1007028 | Not Available | 717 | Open in IMG/M |
Ga0208534_1011364 | Not Available | 612 | Open in IMG/M |
Ga0208534_1011658 | Not Available | 606 | Open in IMG/M |
Ga0208534_1012513 | All Organisms → cellular organisms → Bacteria | 592 | Open in IMG/M |
Ga0208534_1015953 | All Organisms → cellular organisms → Bacteria | 545 | Open in IMG/M |
Ga0208534_1018006 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 523 | Open in IMG/M |
Ga0208534_1018240 | Not Available | 521 | Open in IMG/M |
Ga0208534_1018470 | Not Available | 518 | Open in IMG/M |
Ga0208534_1018777 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → unclassified Pseudolabrys → Pseudolabrys sp. FHR47 | 516 | Open in IMG/M |
Ga0208534_1019036 | Not Available | 513 | Open in IMG/M |
Ga0208534_1020391 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 500 | Open in IMG/M |
Scaffold ID | Protein ID | Family | Sequence |
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Ga0208534_1001012 | Ga0208534_10010121 | F031074 | MATAVKKLDLEIGELVEVGGRRYEVVPDRQGGLTLEPPITPVAVLYAERGWELAAREAFEQLTA |
Ga0208534_1001423 | Ga0208534_10014231 | F064701 | AMADPLQIGPSAIPSGSVRTLYYSMRHRTQLYLDEGQYRWLRQRAGEAGSIAAVVRQLIDDERARRLDPSADPLLSYLVAEAPGEGREPTSVTSLDRDLYGR |
Ga0208534_1002370 | Ga0208534_10023702 | F078852 | MERTELLQLVSHASSLNQISSVMAGIRGWLADHPDDEEMRHAIVELSRLEREHFTYTSR |
Ga0208534_1004019 | Ga0208534_10040193 | F001213 | IDGEEVPVRAGTILRFDPETTRVPIAGPDGMTMIAIGARRGSYEPRGPF |
Ga0208534_1004655 | Ga0208534_10046551 | F090606 | PVAKEDKVPVAGEDKTPVANEDSQGETGPQAVGSVAKPGLTPDCEKELRRAASLLRFFANRIQVGEDTQAIVADMRQQEKKISAVCE |
Ga0208534_1004845 | Ga0208534_10048452 | F086136 | MGRLPRRQFLLVSVAFLARSLAAEAQQAGRVYRIGYL |
Ga0208534_1005337 | Ga0208534_10053371 | F070289 | AGPTIVKQFKQLQLPQRLVLTGANVSPQFLQGTCGDVNGAIVNSFLATAWAFLPKTNPVRAQAALLRSILKRPVSNFDGDASGALWAYKAAIERGSATRAGINTALETKLRGLVTPAGRIFLSPRNHQGLQLDSMWVGRIQNCQVRPLFGPAFTKKKK |
Ga0208534_1005539 | Ga0208534_10055391 | F047749 | RALHGLYKVGLLGYVQHDRVRGQWRQRFLRPGDATLDPTGALPPASHYLVHPVLTDVIGRLNPAFVQRVNRANLIGYDKPWRDDTAPPEPIATVQHCCVLKADVHGFGGLMRAGTDGPVRRALERAVQRWRPPSATAEAGAGDAVLMVDADPVAIAQAARHLMDDVYHAPGQPRLRIALHYGPVRTRPDPRRHGTEIIGGDAVLCAARVEPVVEPGQIWATEEFREQLSQRPSLWRTTPIPSPSGDGPVNVKKEGNG |
Ga0208534_1007028 | Ga0208534_10070281 | F025096 | DNHTKAPLQWVVQAWVKTEAATLYAKSINLEGIIEHVTWNKDGAPSVGDQHLSGDVRTIPFAWMNAKERLLVTEPVRVHFYTLLKEESSAPTPMDHYLGVVTTESIGKGSVITWRVYFDTTGWSPMASIMSSQIKSGLEKGFQSWIDEYGGMLIPVEVKN |
Ga0208534_1011364 | Ga0208534_10113641 | F018388 | MIGRTLAVAALVGFATIDVVPLTHAEHIAVSTELLQQASIITPEGITVDPNNKEELKKYDNRHDLSELADSLRKEFGVTTSQLTQLIACTGPVVCKVPSADGKRINIYQGSGSIALQPNILVTVKHAFQDLDTGQLLPIDTCRFHNWKNPNDEIAIIIDDPSQLPPIATSMSKTPQ |
Ga0208534_1011658 | Ga0208534_10116582 | F037795 | MVSMMRWEQAIVYAVGALLFIGAATSVFQLYGAALLLGCILMVLSLADGPRGLKLLLRDIKRHVVGP |
Ga0208534_1012513 | Ga0208534_10125131 | F063135 | MNAWLTTAKLVPVLGLIPLGAAVQAAFMQREPQRAPLRVSGENTRSPRRSRG |
Ga0208534_1015953 | Ga0208534_10159531 | F060885 | TRKTISAAAAVAIVSFGGLVMDQAYLAAAPRGTVEVGELTALDNGATTLAQLPEVVVVAKRDFGTYYATAELPEIVVVAKRVASMVAKEDGGKHAPAPAINAGL |
Ga0208534_1018006 | Ga0208534_10180061 | F095849 | MDPLVSIRAKFERFPAAIKGALLLRGADGQPHQIRLEGARATELGGGQPHPVGVEAVVLEASPTQDTFVPFEISTMEMAAGWYALECDVVVDGVPS |
Ga0208534_1018240 | Ga0208534_10182401 | F017538 | LTVSLTFVRASRNRDGEWSSDDYDVFEGKQLVGRITLTPQVPEGRPWFWTITARPESSQNKGYAVSPEQAMLELT |
Ga0208534_1018470 | Ga0208534_10184701 | F029789 | GGLSMIAAMAVDLDSTAAKVLMVAAAILFVPGAVLTLAFVRRHLGPPR |
Ga0208534_1018777 | Ga0208534_10187772 | F092520 | MRRIIQANIDRFKELLKTETNPTKRAMEARLLAEEELKQKHLPAYDKKETKAF |
Ga0208534_1019036 | Ga0208534_10190361 | F047544 | VRFNDGVYLAPGKLFRLSSPFPDAPIVSDGSQPDNNNAGAVSFIDETGRMVGVLYMEDKDKTIAAGEDTRHLADWFRDTGFPRFFQANVPDSKVLRDEAGAIDGKPAWIAVAHVPNGAPLGVSVKGSYDIKRNDSWRGIAVVARGKHYYLLQTELRVEKLAAPDWKYDAN |
Ga0208534_1020391 | Ga0208534_10203911 | F039157 | KPRKSVEREIEIYRETLKIAKTFTPDDLEDMSLLKKVQEGRAAQGR |
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