NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Sample 3300028524

3300028524: Metatranscriptome of estuarine water microbial communities from the Columbia River estuary, Oregon, United States ? R1184 (Metagenome Metatranscriptome)



Overview

Basic Information
IMG/M Taxon OID3300028524 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)
Gs0114516 | Gp0225697 | Ga0210314
Sample NameMetatranscriptome of estuarine water microbial communities from the Columbia River estuary, Oregon, United States ? R1184 (Metagenome Metatranscriptome)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size47464859
Sequencing Scaffolds33
Novel Protein Genes34
Associated Families33

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales2
Not Available11
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea4
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta1
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Postciliodesmatophora → Heterotrichea → Heterotrichida2
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Cryomorphaceae1
All Organisms → cellular organisms → Eukaryota1
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Oligotrichia → Strombidiidae → Strombidium → Strombidium inclinatum3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia → Escherichia coli1
All Organisms → cellular organisms → Eukaryota → Cryptophyceae → Pyrenomonadales → Geminigeraceae2
All Organisms → cellular organisms → Eukaryota → Sar2
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Oligotrichia → Strombidiidae → Strombidium1
All Organisms → cellular organisms → Eukaryota → Cryptophyceae → Pyrenomonadales → Geminigeraceae → Guillardia → Guillardia theta → Guillardia theta CCMP27121

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 biomeintertidal zoneestuarine water
Earth Microbiome Project Ontology (EMPO)Free-living → Saline → Water (saline)

Location Information
LocationUSA: Oregon
CoordinatesLat. (o)46.234Long. (o)-123.909Alt. (m)N/ADepth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©


Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000088Metagenome / Metatranscriptome2436Y
F000820Metagenome / Metatranscriptome878Y
F001488Metagenome / Metatranscriptome686Y
F001926Metagenome / Metatranscriptome616Y
F002706Metagenome / Metatranscriptome535Y
F003127Metagenome / Metatranscriptome506Y
F004461Metagenome / Metatranscriptome437Y
F010163Metagenome / Metatranscriptome307Y
F010305Metagenome / Metatranscriptome305Y
F015858Metagenome / Metatranscriptome251Y
F018935Metagenome / Metatranscriptome232Y
F028939Metagenome / Metatranscriptome190Y
F030104Metagenome / Metatranscriptome186Y
F031066Metagenome / Metatranscriptome183Y
F033446Metagenome / Metatranscriptome177Y
F039101Metagenome / Metatranscriptome164Y
F039672Metagenome / Metatranscriptome163N
F041233Metagenome / Metatranscriptome160N
F041807Metagenome / Metatranscriptome159N
F043967Metagenome / Metatranscriptome155Y
F058175Metagenome / Metatranscriptome135Y
F060338Metagenome / Metatranscriptome133Y
F064770Metagenome / Metatranscriptome128Y
F071276Metagenome / Metatranscriptome122Y
F078787Metagenome / Metatranscriptome116N
F080094Metagenome / Metatranscriptome115Y
F085780Metagenome / Metatranscriptome111Y
F087278Metagenome / Metatranscriptome110Y
F088938Metagenome / Metatranscriptome109Y
F088979Metagenome / Metatranscriptome109Y
F101203Metagenome / Metatranscriptome102N
F102629Metagenome / Metatranscriptome101N
F103313Metagenome / Metatranscriptome101Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0210314_104088All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales1194Open in IMG/M
Ga0210314_104149Not Available1186Open in IMG/M
Ga0210314_105056Not Available1095Open in IMG/M
Ga0210314_107700All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea913Open in IMG/M
Ga0210314_108691Not Available866Open in IMG/M
Ga0210314_108709All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea865Open in IMG/M
Ga0210314_109840All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta821Open in IMG/M
Ga0210314_109978All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Postciliodesmatophora → Heterotrichea → Heterotrichida816Open in IMG/M
Ga0210314_112021All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage755Open in IMG/M
Ga0210314_112139All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Cryomorphaceae752Open in IMG/M
Ga0210314_112957All Organisms → cellular organisms → Eukaryota731Open in IMG/M
Ga0210314_113330Not Available722Open in IMG/M
Ga0210314_113531All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Oligotrichia → Strombidiidae → Strombidium → Strombidium inclinatum718Open in IMG/M
Ga0210314_113710All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia → Escherichia coli714Open in IMG/M
Ga0210314_113901Not Available709Open in IMG/M
Ga0210314_113995All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales707Open in IMG/M
Ga0210314_115063All Organisms → cellular organisms → Eukaryota → Cryptophyceae → Pyrenomonadales → Geminigeraceae684Open in IMG/M
Ga0210314_117413Not Available642Open in IMG/M
Ga0210314_118097All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea632Open in IMG/M
Ga0210314_120434All Organisms → cellular organisms → Eukaryota → Sar598Open in IMG/M
Ga0210314_121879Not Available579Open in IMG/M
Ga0210314_122710Not Available569Open in IMG/M
Ga0210314_122897All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Oligotrichia → Strombidiidae → Strombidium → Strombidium inclinatum567Open in IMG/M
Ga0210314_123067All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Oligotrichia → Strombidiidae → Strombidium → Strombidium inclinatum565Open in IMG/M
Ga0210314_124336Not Available552Open in IMG/M
Ga0210314_124422All Organisms → cellular organisms → Eukaryota → Cryptophyceae → Pyrenomonadales → Geminigeraceae551Open in IMG/M
Ga0210314_126339All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Postciliodesmatophora → Heterotrichea → Heterotrichida531Open in IMG/M
Ga0210314_126834All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Oligotrichia → Strombidiidae → Strombidium527Open in IMG/M
Ga0210314_127934All Organisms → cellular organisms → Eukaryota → Sar517Open in IMG/M
Ga0210314_128002Not Available516Open in IMG/M
Ga0210314_128442All Organisms → cellular organisms → Eukaryota → Cryptophyceae → Pyrenomonadales → Geminigeraceae → Guillardia → Guillardia theta → Guillardia theta CCMP2712513Open in IMG/M
Ga0210314_128491Not Available512Open in IMG/M
Ga0210314_128503All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea512Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0210314_104088Ga0210314_1040881F028939MKTDKINNRNYKLFKYNLLKLQIYSNQPHFTVATFSNNMLEQIEAYLKQVLKIIFEYHVCQFKILFIGFPMISKMRQMKLLHFTNHNFISEKS
Ga0210314_104149Ga0210314_1041491F085780MRSKLKSLKVLQVLPNGCVYFDNLVYLKIFRRYHFSKESLLSNFLDKKKLLLINSNFFYKKYR
Ga0210314_105056Ga0210314_1050561F058175QTGADGTALTAAAGDVVLGYAREAGVDGQIIEIEMIQGGNVVA
Ga0210314_106011Ga0210314_1060111F101203MKTPMQELLEWIRTTLPMDLETPRMIEQKIESMLEKEKERMCGFAEYTRKCGFLSDQR
Ga0210314_107700Ga0210314_1077001F033446NFPEYFWQKPHYNLGNKIVTSDLYKKLNPVRARYDYNGNDYTQMPIYLGVVPQFFWLYGNLDYSFKKWHRHYQAHDDWYPDRKGKTLGHKNGSFCSPTLKQSKYMTLKPNFIPRGCVKEIRTYQMCKAKTGSEDACFSEKISIMEVCPDHVLEALREKKKWYLRAEMIDNDTYKRAMSVSDFNRNRSVSDLKLKTWDYGKTANMRSDSMWQDDRWDPTAFSHAHRFDNVNFPEQEYNDFFGGTKGTAESEEYERNRLDMSGNSTAIRQHQSQKRMNKLKGIVDEVKGLNESK
Ga0210314_108691Ga0210314_1086911F004461FKMAISVATLEWGNRTPGLFIDSMVKSAKVLDRFRLVDGVKSKVQVPIFDASLTFGSDLCAFDPQSSASIDEKEMTVSTYKWAFLNCKNVLETTYRSVLLKKGQHNEETMDVEFKDWVFDYFAKLSAQKALELAATTLVAEFVADASVIDYTSVTNITPASILGDMQGAYQAMSPVMLSAVYGDADRSLKPAFFMGTAAIQAYQIAIAGLYTTTAQGVVEGNIPAYYGMEVVHFPSLAANTFFISAPENIVMLTDDYNDVRAIDMKWEAELSSDKIWGQFKLGFSYLK
Ga0210314_108709Ga0210314_1087091F033446GNKIVTSDLYKKLNPVRARYDYNGNDYTQMPIYLGVVPQFFWLYGNLDYSFKKWHRHYQAHDDWYPDRKGKTLGHKNGSFCSPTLKQSKYMTLKPNFIPRGCVKEIRTYQMCKAKTGSEDACFTQKISIMEVCPDHVLEALREKKKWYLRAEMIDNDTYKRAMSVSDFNRNRSVSDLKLKTWDYGKTANMRSDSMWQDDRWDPTAFSHAHRFDNVNFPEQEYNDFFGGTKGTAESEEYERNRLDMSGNSTAIRQHQSQKRMNKLKGIVDEVKGLNESK
Ga0210314_109840Ga0210314_1098402F001488MARLELTLNFPKSFHIKTFNVKSEKKLSPLAKLILQNVQFKHFYYVRDDISYLLRSNPSERDFLLQALYSIVISLQNNLSINFFDMWIYEIYINKVSTHNKFMSQKSQNLEPSEYITIKLAYGSSVSQDKK
Ga0210314_109978Ga0210314_1099781F002706CNLSIFIIALLANIQLISSLSTETQCHPQCSWKCDDPHCPAICDPVCEPPKCHTSCAEPKNAICDVKCEKPQCEIKCPDKGCEMFDCPKCVTVCKQPHCVTHCQAPKPECEPVCEEPKCDWKCHKPACPKPKCELVCENPNCVPKVDCCPCGVGAGGKNPPFPFFKETEGNKRCCGCDKKRHGSGAPSEIPQVVGVDGALTNTMPMYGIVDTPSHVYGVQRNAKVSMLRNPVALGSPQLTNVAAPNSRDYQNSMDKINLDMAYDDRQM
Ga0210314_112021Ga0210314_1120211F003127MALCNMTTGYNDRTCTNGKGGIKSVLFFPVGNISSSTITANEVTALTVTGEVFLYKLKSNLSSYTAPVRVNKENGTLWYEQTLNMILASDSKELRSEIHLLAQNEVCAIVEKADGSYVALGFGEGLQVNDGSEYTSGVLKSDRLGHSITMAGLEN
Ga0210314_112139Ga0210314_1121391F041233LILGLCVGLLSACSHPYASDLKRLEADTEAALASLQGLYAEGIEVDYADLERHASIARTKRFDSVHEPFFRNEFEVLKYHYRQTSRWFELQSYAEWEAQLTYGLEQVRALKHDAEKGLLDEEALRQGLESEKNALLPLIAEIETSCAAMRELMADHDSLDNHLQSMWDHWEKGNGTVLSDNSENPTL
Ga0210314_112957Ga0210314_1129572F080094MKKQTQKDKKLRKSFNQQELNHVILKSIVKNENLS
Ga0210314_113330Ga0210314_1133302F015858MSNLISWGVAYCSSWWGDADRTTLSIQNESAPPCFAPINDIAIAFQERVEADGGVLEGYDCLVAALQDLGEDNYYELWDTYILRMT
Ga0210314_113531Ga0210314_1135311F000820GNLKNLVTDKPAPITVALAQKSDSDGLFKLMDANVTRGNLKNLVTDKPAPITVALAQKSDSDGLFKLMDANVTRGNLKNLVTDKPAPITVALAQKSDSDGLFKLMDANVTRGNLKNLVTDKPAPITVALAQKSDSDGLFKLMDANVTRGNLKNLVTDKPAPITVALAQKSDSDGLFKLMDANVTRGNLKNLVTDKPAPITVALAQKSDSDGLFKLMDANVTRGNLKNLVTDKPAPITV
Ga0210314_113710Ga0210314_1137102F060338DFSITNLVLVNLLVLLLFAATIILFSSKVNYLKETSFFFIPST
Ga0210314_113901Ga0210314_1139011F039101MAVTATVDKFGMEFTGAYHKVTRLNYESYDSKTLQYAPPAEPSLDENGNPVPPMVAPPTEVWVKAVRCNFEVATYASAVTREAHAEPIYRTNYNFTPSAEAEAADILVQAYAHLKAQAGYEDAVDC
Ga0210314_113995Ga0210314_1139952F010163LLLKIAKNSFFSRNTITHGYIKHTSQTIKALYFIKEETFSYYVQWLLLFWYTNLSNLRIKTNHFILYIYSSFLNNQKLLSYVININLSLTNTVINVNNVNGNPKFFYSAGMFNLQKKQKTRQPKAIITILRALLLKSKFFKTKPVAVHFHNLFFNHQSYIFKKLKQKIFTKLVTSYLYKAHNGCRLKKKKRIKIRTRTRKL
Ga0210314_115063Ga0210314_1150631F078787TWTAGLADAYPNCTLASGDKSKIFIYNRVLLNAKGECNYFQPVFSSNDFKGADRAEDTDSLLDQIYQEFNAGNARFGDDMKVEFPVVGKMDKAGMFELFAKFGGCQRAMQKGCVPVNMSTGKDEVFEGIVPCVYSFKWSSALNDVFKLELADGADVVLSSYDCLKIKSGKVISFAPHFDPAANIKPAGKSGAA
Ga0210314_117413Ga0210314_1174131F087278DQPLFESPSSFTPLQNLPFDRRTPEEKARDVENILNWKRNPKEHDSPATEPFKKIDQLLPEKPGQTPEDRANDIDNVLTWLRNGGIDEPKFGPNEPFRPMKNIDMPDKRSPTEKARDIENITNWVRNPKENDRPETEPFKKIDQLLPKKPGQSPEDRAKDIDSALTWVRNRGVDQPLFESPSSFTPLQNLPFDRRTPEEKARDVENILNWKRNP
Ga0210314_118097Ga0210314_1180972F071276MGDKLLEQVVIMSLKAHFFRPMHYSSPIENSFYLGRALADLTDRHYALFANNQHPMQLDIYDNYNQMLRVLHDQGHQQRMADTEARMEEVKAERTKYLNSKEGESLSIDDLQDVYCQVKAEEREQHNFSLNTKSKTGDITDYLETRR
Ga0210314_120434Ga0210314_1204341F001926VRHEDIPEVNNPKIRFPVLEGDKLMKEVLNGGYNVHPVPPPNSEIKERIRKRYERKRIKIEKLLTLGYTTSGDP
Ga0210314_121879Ga0210314_1218791F010305LKRAEKPHSKFRRRKALDGPATRPETPLAVENGDGKLTAPAKGAPNVSPGKRAWRTPIP
Ga0210314_122710Ga0210314_1227101F064770TSLDNESXIKIEQGFVNHELKYYRILNKLMINTLKSSVFKNVIVLIHGPIILLNNDNNDTKLTFKELENINPLINLLGLRLNNKIYSKKQIKNLKRISYVENIYSFHKFMKTFVTQPYYKLKSKKTLSISK
Ga0210314_122897Ga0210314_1228971F000088KYTVFIALIASCSAVSLKSTSGLTFAPPAKGPYASDTDHLSNECYGADEDDIMYDVFERYRVEEKNPLGSGTGVWKLPKGSGPQWSADIIRRFHVMDDDKVNDYVAANFDNFWKKYDNNGTGEIYESEGETFMRALLGPNNRFRLAPGALSDLDSAAQIHQNQFSKLPEIGKFDPTSYTMATPTVAAP
Ga0210314_123067Ga0210314_1230671F039672PECSAEVVLSTLLFEEIEFLEGLQSVDSKDKSVVTSHTKTVHELLELNVVEDHGGDVVGVHFGHGLVSLGLNLSGDSVSVSEDSVSDLGAEGSGVVVSLGLRVRDTEGEVLGDLIEVGLDGGEELSLWVLLNLSSFSSGGLVSSDVLIGDGIGSNIWESRNVLNRVWVMVVSLDGSGGGDKSAISQEF
Ga0210314_124336Ga0210314_1243361F102629LNFNQKKVFMKTNKIILASAFAIFLISCGGPKKVVKSLSPVAQETAQVTVAAKDVNLSVEVNREIVMPVVENAKPNPVKLVSFVNVDDLADLTAGMTKQEVYAKLGKKPFDIISTQADGYSVVLYKYRKVHVILNDQNENSIGATGDKEYGTKIQDVYIAFNKDGRLELVVSKDEVEAAQNVLK
Ga0210314_124422Ga0210314_1244221F088938TQKLAQITQLPVYSETEEVAKILMEMLDDLATRLSVIDEVDAQAQQLVDDAYAKMIEWEKKLVVLANEADKAKEKMLKEKLEREKLAGDKDVATQTHDTESAAYKLIITPYMREIYVITMIKIKINSHCDKLANGEASTFGDR
Ga0210314_126339Ga0210314_1263391F103313TLATFILFFSFFKEGEWLGNFGCSKCTRTAFNFRDTVGIFTNEFTFRFRAGGFVAFPVTFRFFTNWFTFGFGGLAVSNAMGLFADSDTFGAVKHFTSFIGAFNFTFGFFAFDVANGVFGFSA
Ga0210314_126834Ga0210314_1268341F030104MAIMAFDDDQEEVIEFMDTSFFNFFSLIIFYLCFKHSIHYFAFLEASVVEGRTVGFVAKQFFRDFLNTFSLMLRFYTLLFRMNVYDNLDDFFDSYYIFVGDFDDDEYLNELFLSIHGTILFTLDNHDDRSFLLEDENDFSNDFFYTYFVLXGKLYLFVFFIAELAAR
Ga0210314_127934Ga0210314_1279342F041807MARLELTLNFPKSFQIKTFNVKSEKNLSPLAKLILQSVQFKHFYYVRDDISYLLKSNPIERDFLLQ
Ga0210314_128002Ga0210314_1280021F088979SDFTCSMDGYVAMTQKLIELSLFALALIKETYAAILPLELGKSVAYAWDGLVGAGSWAGYAVAALYYFGLEYGYADMMCEYSGYGYIAIDYLSFFIDFADSA
Ga0210314_128442Ga0210314_1284421F043967TVALSLVASAAAFTPAVVPTVRGNTAVCANKFGQAAPQGAPPADLFNIWRDDYMLTPAEAAAEEAERKANAFFDGVLPPFSNVGNTGRGDILDAPTLRGIGLKADFSTANPTSAYDTANFGKAEIINKDIIANPITNEGPEAAAKKTLAAAAQNTDPSYASQSLANFARW
Ga0210314_128491Ga0210314_1284912F031066MARATPFDPKNSSVSAVQYVTDTAGSPAFATAYGEANQTLIEMSPKGVKVQAGTLATWP
Ga0210314_128503Ga0210314_1285031F018935NNNNQGGGRSTYSYYDYTKQHNSRFLNKYQSHAHFWAGRGSGYMELLRMKAQRLKSNRNWMWFDIRYGTKFLYILYMPQLFFLTVSYILTPVWRRMDERYHLRFADGEFDDIEENEPFVTYQMRKKPLTRRKYSDAIKLVYDGQEEYDYVSEQPQRYR

 ⦗Top⦘



© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.