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 3300006364

3300006364: Aqueous microbial communities from the Delaware River and Bay under freshwater to marine salinity gradient to study organic matter cycling in a time-series - DEBay_Fall_0.3_>0.8_RNA1 (Metagenome Metatranscriptome)



Overview

Basic Information
IMG/M Taxon OID3300006364 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0114433 | Gp0116177 | Ga0075482
Sample NameAqueous microbial communities from the Delaware River and Bay under freshwater to marine salinity gradient to study organic matter cycling in a time-series - DEBay_Fall_0.3_>0.8_RNA1 (Metagenome Metatranscriptome)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size49645227
Sequencing Scaffolds17
Novel Protein Genes23
Associated Families20

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available12
All Organisms → cellular organisms → Bacteria1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales1
All Organisms → Viruses → unclassified viruses → unclassified DNA viruses → unclassified ssDNA viruses → Circovirus-like genome RW-C1
All Organisms → Viruses → environmental samples → uncultured virus1
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Choreotrichia → Tintinnida → Xystonellidae → Favella → Favella ehrenbergii1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameAqueous Microbial Communities From The Delaware River/Bay And Chesapeake Bay Under Freshwater To Marine Salinity Gradient To Study Organic Matter Cycling In A Time-Series
TypeEnvironmental
TaxonomyEnvironmental → Aquatic → Marine → Coastal → Unclassified → Aqueous → Aqueous Microbial Communities From The Delaware River/Bay And Chesapeake Bay Under Freshwater To Marine Salinity Gradient To Study Organic Matter Cycling In A Time-Series

Alternative Ecosystem Assignments
Environment Ontology (ENVO)marine biome → river → sea water
Earth Microbiome Project Ontology (EMPO)Free-living → Saline → Water (saline)

Location Information
LocationUSA: Delaware
CoordinatesLat. (o)39.283Long. (o)-75.3633Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000048Metagenome / Metatranscriptome3365Y
F000073Metagenome / Metatranscriptome2639Y
F000080Metagenome / Metatranscriptome2485Y
F001346Metagenome / Metatranscriptome718Y
F001679Metagenome / Metatranscriptome653Y
F001758Metagenome / Metatranscriptome640Y
F006508Metagenome / Metatranscriptome371Y
F007695Metagenome / Metatranscriptome346Y
F008512Metagenome / Metatranscriptome332Y
F017318Metagenome / Metatranscriptome241Y
F020094Metagenome / Metatranscriptome226Y
F024800Metagenome / Metatranscriptome204Y
F025295Metagenome / Metatranscriptome202Y
F026580Metagenome / Metatranscriptome197Y
F037756Metagenome / Metatranscriptome167Y
F042356Metagenome / Metatranscriptome158Y
F044534Metagenome / Metatranscriptome154Y
F067804Metagenome / Metatranscriptome125N
F078768Metagenome / Metatranscriptome116Y
F099393Metagenome / Metatranscriptome103N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0075482_1000233Not Available686Open in IMG/M
Ga0075482_1000747Not Available760Open in IMG/M
Ga0075482_1008230Not Available755Open in IMG/M
Ga0075482_1022101Not Available657Open in IMG/M
Ga0075482_1032660All Organisms → cellular organisms → Bacteria908Open in IMG/M
Ga0075482_1132496All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales526Open in IMG/M
Ga0075482_1140322All Organisms → Viruses → unclassified viruses → unclassified DNA viruses → unclassified ssDNA viruses → Circovirus-like genome RW-C617Open in IMG/M
Ga0075482_1145659All Organisms → Viruses → environmental samples → uncultured virus1136Open in IMG/M
Ga0075482_1149296Not Available742Open in IMG/M
Ga0075482_1149519Not Available719Open in IMG/M
Ga0075482_1153972Not Available602Open in IMG/M
Ga0075482_1156266Not Available618Open in IMG/M
Ga0075482_1159771Not Available632Open in IMG/M
Ga0075482_1162315Not Available594Open in IMG/M
Ga0075482_1165547Not Available628Open in IMG/M
Ga0075482_1165909All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Choreotrichia → Tintinnida → Xystonellidae → Favella → Favella ehrenbergii512Open in IMG/M
Ga0075482_1167564Not Available766Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0075482_1000233Ga0075482_10002332F001758RLGQAGWLSPSQAGSKGAGAEAGFTSSSGGVRALSVHAKKGLNG*
Ga0075482_1000747Ga0075482_10007471F007695VKRRDPWFEANALPKAVAVLGLSGQDAEISHRSVLIWFAGRWRNHQSKRAEKPHSKSSGGNALDGPATRPETPLAVENSVGKLAAPEAPNA
Ga0075482_1004385Ga0075482_10043851F000080MTFWQENYPFIKDVYIMRQTKMIEWMENVEKAISRIMADKVYTSAEFKRERDNFHALCKDLERGEVKKWLKQILEILMAERGKEERTEQINKLDGLIKKHEELIPTVLKTQVKVDLYWKCYAYGDELKPHIEFLDGIMLSSTRDIAPSCIENVEELIERQEKSLSQLETKRAIVRELISKGKQLLENPDKPKFLDGHVQRIEEGWDETKDKAQARLQLLQNTKAAWEGYAEGLEQIAVEFEKAEEEMKKVKKRFNLQAAFEDLERRQTIFNICKSTIENMFGSIQHNYDVMTMTLPEDKKDFVKKEVKAVQEKLEVVGRFEEKVKKIEDFCASLNDFDKTIRVIDGWMKDADSQLNTIKNKSDQMTPEDRVSYTMELQEDVAAKVQMIKKAIATESELLPQGDKVPQDAQDYKDELKRIEDFVTDLHKRVMKECDNFSEDVKYW
Ga0075482_1008230Ga0075482_10082302F078768LRWLAVINRLSLVVSRIIPGDWGKVESGWLAWPL*
Ga0075482_1022101Ga0075482_10221011F044534HQFLWPESCPVSSHTNQELCGKARLETASSRVRPTGSFDPCADAVTPEGFGCYCADQNAVTVPGGPTPPEGLARRTREARNGAATAGRERIWQSS*
Ga0075482_1032660Ga0075482_10326602F001679MSWHQKAKKGVEVCEKPGVVDKRTLIPGFPNQRALNS*
Ga0075482_1125984Ga0075482_11259841F000048KELQDRYEKVKAVSDEWVKKVDTLVKEWKLLDSTVSELNSWVAQDRGAEGEAMFSLEKMESTLGELKNIFKEKEKLVENL*
Ga0075482_1132496Ga0075482_11324961F020094VLLFVCINLHNVKVKINYFISYLYFSFFNRQKLISHVIHINLSLTNTLINVNTIKGNPRLFYSAGMCNLQKSQKTRQPKAILTILRILLTKTKFFKSKPVAIHFNNLFFNQQSYILKKLKKKVFTKLIASYRCYSHNG
Ga0075482_1140322Ga0075482_11403221F017318MKFQRTVQAAYDITTNGIAANVGLINFSLSDLPSSSDFTNLFDLYKIERLDIAWTPEYTELTDASALSNAVNVYFHTAIDPAGIVPAAVDDILQYRTLHSTPITKMHKRDFVPAILLDGIIPASCYISTGSPNSNLFGIVYGIPATGVAMTFRSVA
Ga0075482_1145659Ga0075482_11456591F017318VEDAYNIICDGINPSVGSFNFSLNDLPSYTEFTGLFDLYRIDEIEIEWYPEYTVLSDGGVTSPAVNVQLNTAIDPAGNTPILVTDVLQYRSLHATGISKPHKRRFVPSYLLDGISPAKCYISCASPSSNLWGIVYGVPPTGTAMTIRSRARFFLSLAQSR*
Ga0075482_1149296Ga0075482_11492961F099393QRERETLMLVERGMPMRQIFPHGESQAPDSACGQVTGSGPMVGRVKKVVLFSVCLPALLIALGAGESLNLAYGQSESNAAASSAVRATASGVSDQTFSTRERSEPTVTGAAMHVALFVPRH*
Ga0075482_1149519Ga0075482_11495191F024800VARGQRIARSDGRPRANGGDAETKSRACLHQVRRPVAQPPVQAGLEASLEFQRARAAGRPCYEAERTPLAVENSVGKPAA
Ga0075482_1149519Ga0075482_11495192F001758GLEDSQATGERLGQAGWLNPSEAVSQGAGEEAGFTGSSGGVRALPATRKTEPRGEER*
Ga0075482_1151041Ga0075482_11510412F000073MEEHNNLRTICDDGKGKLQWEREIPHDALDNLQNLANSDFHKNLGTIIHDIYLTAHKMFSDMPQGDHKKRAKYRFASKTLMRILPDNLKNEVEGLIAKNTMTLDLYEILGQCTWGQRSL*
Ga0075482_1153972Ga0075482_11539721F026580VRGDEKPLRVESNVSQAGFEPGRIAVTQRVFGCYCASARTDNSGGLREGVSQRKDAERRDKVSVRSGKDTWSRQDP*
Ga0075482_1153972Ga0075482_11539722F001346VKTFREAGDSKNAVAGLWMKGNLRDKRRDPWHRANAPPKAVADPALSGGDVKMQSQTCLRLVREPVAQPPVQAS*
Ga0075482_1156266Ga0075482_11562661F008512VRTALAGAIKIETAQRKTPKGGQKERTHREEHGNSAGSVKNFQAPAMLKTTPLDCEIKSSLREKRRDPWFGANASSKAMADPEPVVKTRK*
Ga0075482_1159771Ga0075482_11597712F006508VALANASSKAVADQCQVVKTRSRNRRRVLTWFASRWRNHQPKRAEKPHSK
Ga0075482_1162315Ga0075482_11623151F025295MVTGPGEAAELLRRREALIPEKLKFITRKSNLQKPI*
Ga0075482_1165547Ga0075482_11655472F042356LSETQLPRGYLVATVHQHGASDSGGFDQPFETAQRKPLKDGQKERMTRESHDGSAGRVKNFRAPAMLKTAPLACEQKAT*
Ga0075482_1165547Ga0075482_11655473F006508VAVVNAPLKAVADQSQVVKTRRPNRRRVLTWFASRWRNHQPKRAEKPHSKFN
Ga0075482_1165909Ga0075482_11659091F067804ADNAHDDVKIAGLVQGFFVGAFDFHGMTDVAHCVSDANPVEQHFENAMRGFWNGSYQEVTKGVDQLGLAVSDIGDMLDHCGKIDHHDYEQIQRMAESFLHPKQVLLEAAESLIVNGVNIFEDTREGLHDYRLGKWVDAGEHFGQAAAMLLYGKTQMVDHEELFFDFDNHW
Ga0075482_1167564Ga0075482_11675642F037756LFPVPTFGAHLAVAAGFPTPFPAANGVSGLVAGPSNLLRG*
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