NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Sample 3300021852

3300021852: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.23 (Metagenome Metatranscriptome)



Overview

Basic Information
IMG/M Taxon OID3300021852 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)
Gs0114516 | Gp0225700 | Ga0210317
Sample NameMetatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.23 (Metagenome Metatranscriptome)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size88054539
Sequencing Scaffolds30
Novel Protein Genes36
Associated Families34

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Panarthropoda → Arthropoda → Mandibulata → Pancrustacea → Hexapoda → Insecta → Dicondylia → Pterygota → Neoptera → Endopterygota → Hymenoptera → Apocrita → Parasitoida → Chalcidoidea → Pteromalidae → Pteromalinae → Nasonia → Nasonia vitripennis1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Bacillariales → Bacillariaceae → Nitzschia → Nitzschia inconspicua1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Corethrophycidae → Corethrales → Corethraceae → Corethron → Corethron hystrix1
Not Available16
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris2
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Ignavibacteriae → Ignavibacteria → unclassified Ignavibacteria → Ignavibacteria bacterium2
All Organisms → cellular organisms → Eukaryota → Sar1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Synechococcales1
All Organisms → cellular organisms → Eukaryota1
All Organisms → cellular organisms → Bacteria1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria1
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → unclassified Gemmatimonadetes → Gemmatimonadetes bacterium1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameEstuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series
TypeEnvironmental
TaxonomyEnvironmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Alternative Ecosystem Assignments
Environment Ontology (ENVO)estuarine biomeestuarysediment
Earth Microbiome Project Ontology (EMPO)Free-living → Saline → Water (saline)

Location Information
LocationUSA: Washington
CoordinatesLat. (o)46.27Long. (o)-123.946Alt. (m)N/ADepth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000075Metagenome / Metatranscriptome2622Y
F000344Metagenome / Metatranscriptome1257Y
F001506Metagenome / Metatranscriptome681Y
F001679Metagenome / Metatranscriptome653Y
F002436Metagenome / Metatranscriptome559Y
F004925Metagenome / Metatranscriptome418Y
F006508Metagenome / Metatranscriptome371Y
F008361Metagenome / Metatranscriptome334Y
F017072Metagenome / Metatranscriptome243Y
F018020Metagenome / Metatranscriptome237Y
F021217Metagenome / Metatranscriptome219Y
F021307Metagenome / Metatranscriptome219Y
F022124Metagenome / Metatranscriptome215Y
F024483Metagenome / Metatranscriptome205Y
F026908Metagenome / Metatranscriptome196Y
F027192Metagenome / Metatranscriptome195Y
F031503Metagenome / Metatranscriptome182Y
F042669Metagenome / Metatranscriptome157Y
F045132Metagenome / Metatranscriptome153Y
F046726Metagenome / Metatranscriptome151Y
F052976Metagenome / Metatranscriptome141Y
F053305Metagenome / Metatranscriptome141Y
F053640Metagenome / Metatranscriptome141Y
F057770Metagenome / Metatranscriptome136Y
F060561Metagenome / Metatranscriptome132Y
F061584Metagenome / Metatranscriptome131Y
F063220Metagenome / Metatranscriptome129Y
F065810Metagenome / Metatranscriptome127Y
F074319Metagenome / Metatranscriptome119Y
F077370Metatranscriptome117Y
F078221Metagenome / Metatranscriptome116Y
F086800Metagenome / Metatranscriptome110Y
F096335Metagenome / Metatranscriptome104N
F098390Metagenome / Metatranscriptome103Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0210317_1013583All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Panarthropoda → Arthropoda → Mandibulata → Pancrustacea → Hexapoda → Insecta → Dicondylia → Pterygota → Neoptera → Endopterygota → Hymenoptera → Apocrita → Parasitoida → Chalcidoidea → Pteromalidae → Pteromalinae → Nasonia → Nasonia vitripennis664Open in IMG/M
Ga0210317_1013821All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Bacillariales → Bacillariaceae → Nitzschia → Nitzschia inconspicua2031Open in IMG/M
Ga0210317_1019474All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Corethrophycidae → Corethrales → Corethraceae → Corethron → Corethron hystrix1176Open in IMG/M
Ga0210317_1024913Not Available889Open in IMG/M
Ga0210317_1029757All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris665Open in IMG/M
Ga0210317_1030561Not Available742Open in IMG/M
Ga0210317_1056424Not Available795Open in IMG/M
Ga0210317_1058411Not Available760Open in IMG/M
Ga0210317_1061821All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Ignavibacteriae → Ignavibacteria → unclassified Ignavibacteria → Ignavibacteria bacterium558Open in IMG/M
Ga0210317_1063590Not Available913Open in IMG/M
Ga0210317_1072490Not Available657Open in IMG/M
Ga0210317_1078405Not Available694Open in IMG/M
Ga0210317_1078826Not Available505Open in IMG/M
Ga0210317_1084393Not Available514Open in IMG/M
Ga0210317_1093994All Organisms → cellular organisms → Eukaryota → Sar963Open in IMG/M
Ga0210317_1105984All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Ignavibacteriae → Ignavibacteria → unclassified Ignavibacteria → Ignavibacteria bacterium615Open in IMG/M
Ga0210317_1106656Not Available514Open in IMG/M
Ga0210317_1115528All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Synechococcales3187Open in IMG/M
Ga0210317_1115659Not Available541Open in IMG/M
Ga0210317_1118454Not Available862Open in IMG/M
Ga0210317_1121504Not Available536Open in IMG/M
Ga0210317_1125985All Organisms → cellular organisms → Eukaryota777Open in IMG/M
Ga0210317_1126465Not Available1146Open in IMG/M
Ga0210317_1138093All Organisms → cellular organisms → Bacteria659Open in IMG/M
Ga0210317_1156520Not Available746Open in IMG/M
Ga0210317_1158564Not Available806Open in IMG/M
Ga0210317_1172028All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta661Open in IMG/M
Ga0210317_1172082All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria6565Open in IMG/M
Ga0210317_1173166All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → unclassified Gemmatimonadetes → Gemmatimonadetes bacterium2250Open in IMG/M
Ga0210317_1189274All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris772Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0210317_1010778Ga0210317_10107781F052976VIGFGSNTTTLVLIYLPLLHNIQPIFTTQRGHINLIQCKKPIMSDGVYKCDACGRNNFKSQRGLSKHKLENKACRAHLYARFGSKADSKIAAAYLAVDTVHKPQACDAGSQNAMHYSDMSAGLGAKRAKFMSLPDKNFVSAWAMKAQSLLEQSQAELDSDSDAGMYDAENDVMLPPTGESSSARQNIMLDNFKDYAQRANDFVPLDANKFVTAITLLQTLRR
Ga0210317_1013583Ga0210317_10135831F042669GEKVLLVRQVDDFALGCRQESTAKSVYATIGAKLTLHNEAEAPFEYLGLVDSFDGYDVLQTRDYIKLSAESYIRRLLKAHGWENPSPRESSNKPKPPLHESDVANLFNLAAGPVENTPEHKALEAEHGFGYRSVLGEILFAYVLCRPDIGYAVTTLAKFSTAPNALHYKSLKHLAIYLRQTQDWGIMYWRNVPVASLPEVPYFPMRFDDSLPVIPPPSHLR
Ga0210317_1013821Ga0210317_10138213F008361VNDVEELTNIELSEAIKELEAATSAVENAETSKARLDASVELKKATARLEAVNYLS
Ga0210317_1019474Ga0210317_10194741F008361VTVLVNDVEELDNIELSEATKELEKATLAVENAESSKARLDASVELKKATARLEAVNYLS
Ga0210317_1024913Ga0210317_10249132F021217VQELKILEVATGSILTANRYEAHLDGGSQASTTNDKAVLWGFKGYTNKNPCQIRLICADGKTPIVPEGYGTVRIPADNAEGYVPIKCYYTPDIPNFILSPNSFKALLGKHYNRYKLECDDDKKNFRFSLNHKMRKSGSVLLRGTTRGGLCYTRPAIPPMPTTEGTAEMSLDMADKAAISMVEDHPKNSYRHEM
Ga0210317_1029757Ga0210317_10297571F022124RSRPSPVKLMPATVDSDAVPKGIGYLHVPAKNAQGYLAVPTFYTPCLRTTVIDERDLVKAAKVSVKDIRSDSITKHKDAGTFTYHARHRMKSSKDVIVHGVLIDDKCYTGALIPPDLSPSDPKATPSTSSILAMESDPDFAEQCRKATILAVHGYHEAVETQLRDELTKLPMQFHTLPFHEYIQANTPVTTIKAATERLLWHQRLGHPSDYYLFHAHQHAD
Ga0210317_1030561Ga0210317_10305611F004925AVERSQQVVSRIRPGDWGKVGSGWLTGLLWITAERPGKGGRIHQFLWQRSRAASNAKKELGDEER
Ga0210317_1030561Ga0210317_10305612F026908VALANAPSKAVAVQRQVVKTRSNRRRVLTWFASRWRNHQSKRAEKPHSIIQGWKTLDGPATRPITPLAVENGVGKPAALR
Ga0210317_1056424Ga0210317_10564242F002436MRSCIVGLFSGRDRRPVAVVVTTDGRRAHLPIETGPFDASLLSLLRSLFVGLESLLGLITGSRRENGGSRRDGGR
Ga0210317_1058411Ga0210317_10584111F045132VLMHSSNHYPLGNCDSPGSETNPDYLTQFGTVSHRSSLPSSFFACTDGARTPPEELVNSASSVAYVSTRLHRGRVNQPDPTFPRSPGRILETAADLFSLTVSRL
Ga0210317_1061821Ga0210317_10618211F027192FMFVLALLLVVGLSAALAQSEAEALVTASVESELILTNIDGDWGLFSPGLTYVVTPGGFKEPPGPGEGAGITVDPIGFEVEGNPNSEVLVSLVLPAAFVSDDENGTMPLSNWTYGWNFDDDPSVAFSAAGPVTGSAVTVIIGGGAVSGLFLGASVSVPTTAFAGGYTAQIIGSATYTGN
Ga0210317_1063590Ga0210317_10635901F061584ARLAVSPSKVRVIDSASRGLVTEPRWTLMKIGRSTECCERRSCRRIRLPAPTMTSLFPGSLCGLTPTPSPVPLRVRVHPLVNFASPSEHEPFRSCPARCRAWRLPWGFFPHRGINTRSPLSIELPTARTIGPSSAFLTPSTVYSSAYLAGLFHPTTTSGIHLSGVISRYQASPPHRRPVPSCRSSTRSYHRVAPTAPDRADPPTGS
Ga0210317_1072490Ga0210317_10724901F006508VALANASSKAMADQCQAVKTRTRNRRRVLTWFASRWRNHQPKRAEKP
Ga0210317_1078405Ga0210317_10784051F077370NQPRIVNNKQSRNRRNNRKRILKNNSHQLAVPRPMSILGKTNDRAIDILVNIFAVNSLGTPFYSFAVSAGSPQVSANLTDLMILQFTEYSELAQIYGLVKLKKIQLGFTRSSNYIGGGTTILQNTPSIFLQASTIPYNVGTVSLQRAIAQSDNSIEIDLQTYDPKSYDILLPPHIVSNNRANNQTFAFGSQTWISTRLNNVQNFPDLFLNLGSLATPTFDPSTTSGNSVLI
Ga0210317_1078826Ga0210317_10788261F053640EQSKRSGLKDVAESTAGIIPGDRGMDGDSWCCPPLQAAQVVERHISPVPLAGVVSGQSTHESGTERQGAIRNRVEPSQAHGKFRPVCRRSYHRGFWLLLRRPERSHGARRANPARRPRSPHERGAQGSRDGGERADLAKSVKPPRRGGVKNHVTPLQKRKQP
Ga0210317_1084393Ga0210317_10843931F057770SGSVLLRGTTRGGLCYTRSAVPPMPMTEGTAEMSLDMADKAAILMVEDHPKNSYRNEMKLHALSAKAERLLWHQRLAHCGDEQLCRAHMFSDGIPEITRGKDSALDSCPVCLAANMKSRNRGDGETRTATEPGQGLSLDFSFAGQHSKNATDPKKMRINDYMGVHGETCY
Ga0210317_1091512Ga0210317_10915121F000075MKFATVLLAAVAANKYDHMTDDELLAQLASNLSSAQMSEARGDGDAAVAKTAAIKNIQKSLTARILKRLDDGQPLVEVARKMKAIEGMQPQINDMERRLGIMQSVEPVLENAIKTLQKVVDVRGMGKK
Ga0210317_1093994Ga0210317_10939941F098390NAFGTDYVPTIGTRIYKDFGTKGFFAGTVTSGPHTRTKDGDDVTTWKVQYADGDREDMTASEIAYWKAPTEEVHTSTTGAKSKKPKKTIATKPSGDRSEELEDAIPTLGRDASAPTHLRRSTRLQQHALETARMNFLDSNPYLPMDSIGMYEAATCRIHLCDDDPYEELLHNVDEVETLLQDPVVLAAIHRLLDPDADLDELWVNALQSEAISPEEHALPRFSRRALKRLPTWDLWHKNEIEQLDQMKALGMFGAPVKLPEGGILMRFHWQYRIKVNGKRRSRLCCDGSPRAAPEVHSTTNTYASCLEHPVFRLFIALCAA
Ga0210317_1094786Ga0210317_10947861F074319INAINSHAITPEEQELIQLTRHKLKKLSTWPAWRQGEHKQLDQFALSGMYGEPQPRPKKAIVLQPHWLYTVKRDGTRRSRNCCDGSVCASPSLHKFALTYSSCVEQPVQRLFFALSAHMNYRVYSGDAQDAYAHSPPPEVPTYISIDD
Ga0210317_1098494Ga0210317_10984941F063220VNTSTTNYAPFATVQEKIATHIQKSYDSGHDLAKSICTGTLIDLSTKQPIRKLADLNEPKAKRDLIQSGFDIEFSTRMGAHIKRENFLQSNLPKAFAYIMNDYCTDGLKTRLAALPDFTTSIQDDPLALLNAIKTCVHENAVTQYPPVTIQQHWSRLLQLK
Ga0210317_1105984Ga0210317_11059841F027192MKRFMFVLALLLVVGLSTVLAQSEAVTLVTATVESELILTNLDADWGLFSPGQNYTITPGAFKEPPGPGEAAGDQVESAGFEVEGNPNSEVLISLVLPAAFTSEDENGTMPLSNWTYGWNFDDDPSVAFSAAGPVTGSAVSVIIGGGAITGLFLGADVSVPTTAYTGAYIAQIIGSATYTGN
Ga0210317_1106656Ga0210317_11066562F096335LLLWLLLEFKFNSIVATIVVVAFVVAFDEPMKPFGSLVANLLPFSCSIGVLPSLPQEMQPVHFKT
Ga0210317_1109482Ga0210317_11094821F046726PNFVPLSQISEKEKIDLIKTGFQLQAEGKIFLKKYYKSTQEYSLFQSKGYSSKYETIRKITLFKQFKF
Ga0210317_1115528Ga0210317_11155286F001506MRIDVNVMKNFQLQKKRKSPTKSEGKPLQYPKPNEIISKTFQIRYDKKLSTTSKFILNSFQNKYIYYAIDDILYLFELNKTERNNLLAILYSPVLSLQNNFFVNFFDIWIREIYIDEVSKVNKFLNHDSQTSEQFSYIIIKFFYKTRVP
Ga0210317_1115659Ga0210317_11156591F078221NIQTSKRPIAMHTNAGASTLNLEAEVPCFGKVYYDPNHIANIFGLAKMVDTADYVTFDSRIDDAFHVWTEGIETVFARTPSNLYAYKPSANYLEQIADYKNMLPPPDTSGPSVQATALIDDTFAFHFFMDSNPAPVAEPEFQFLLETVADNLKLYTKREQKDAKLAQITFHGTGRTPIPK
Ga0210317_1118454Ga0210317_11184541F031503MDKQKLAELFKATAAFDSPEGVEAYKAFAQALTVPILQEIRDASIMRQLFAVERLQPGAQAVYPVADDFEVPVFVLPGLGYIAQNFIEGVGEEVYVPTFSISVSADWKVTYARDSRIDIPERAARNAARAIADFEEESGWRVIVPGGTTNFSGQGLLGARNAPIFQVPAGSTGEKFLSKELINLMMVGMKRVRRSLTDLYISPEDAADIREWTDTQVDPITRREIFTASG
Ga0210317_1121504Ga0210317_11215041F053305MLKKSLSIVLTALFVFSFIAVGTVSAAEVKGEVVSVNAETGEMVIKDDAGEMKTLMADPKVVDLKMLKEGDMVSVESD
Ga0210317_1125985Ga0210317_11259851F018020VSDTFGEGTTEKVSIILSGYSSLTLEINKVPIPDPVPPPNE
Ga0210317_1126465Ga0210317_11264651F060561LNIDHIAGKKNPADILCKHWDLPSVWNTMKPLLFWNWKLMAPEAAGEEGSNIETKDVAELVSKLDAKYNVKVTAQGKGQKNDHVLIEGSDNGSISPVIQAGNQGSRPENTVRPKGKDTNPRTEQSKGIKK
Ga0210317_1138093Ga0210317_11380932F001679VDQATKGTWGMSWRRKAMKGVEDCEKPGGVVKRALIPGYLN
Ga0210317_1156520Ga0210317_11565201F017072MRMRDLAVGSDEKPLRTESSSPETFRFRMNRSHPEGEQLLLCISTVRAALAESNQIEAAQRKTPKGGQKERGHREEHGNSAGSVKNFQAPAMLKTTPLDCEIKCNLREKRRDPWFRANASPTAMAVPGRVVKTRTRDPQACLDLVRKPVAQPPAEASQEASLDNSAPQDAGRPCYEAENSACRGEWRREAGSPAEAGAPNVGVGKRERRTP
Ga0210317_1158564Ga0210317_11585642F000344MRPKSAHAALSGVGEHPARESESAKWSAAGKERVANAH
Ga0210317_1172028Ga0210317_11720281F021307MNRILYESRCRCKEEISITPRRKLSARSEGKPLQYPNEMMSKTFQIRYQKKLSSLARFILNSFRNKYIYYAIDDILYLMKSNPIE
Ga0210317_1172082Ga0210317_11720821F065810YIYYAIDDILYLLKLNQIERDNLLAILYSPVLSLHNNFSVNFFDIWIREVSIDEISKVNKFLNKDSQPSEQFSYITIKLFYKTKVPVKKQESLW
Ga0210317_1173166Ga0210317_11731661F086800ARLDRGIVARHRDPVTADVRIAVLRRDAGCVAARLDGLYHECQGGLTLDHVKDQPRMGVRAPSDMAHLVTLCRYHHIDTGWATAHRPALREYLRTIEGGHDDSSGDETPA
Ga0210317_1189274Ga0210317_11892741F024483KDNLGLLRTFGCRLWVKTLAWQNRAKYIQDTKKGIFLGYRTNTLKNVVWYDPLTDRVKYGYHVRFDEGFNDLPLSKLPPNVVLMDRREERVPAETLTITIPPFTTSEHPFFHEDDVTVKVVCNSDLYGFELREDDCMKRVYISDFKRDGKGVKSRRSCNTICSTERATRRKYRGAYITAIDDEEIVTLEQAKEKLKELRSKKVDTFTMILAREPRPSKSMTRRAYDELELPDFDLDENLGEDYFATEGDLEGNSSM

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