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 3300026919

3300026919: Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T3_23-Sept-14 (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300026919 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0114663 | Gp0115666 | Ga0209892
Sample NameGroundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T3_23-Sept-14 (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size57622659
Sequencing Scaffolds10
Novel Protein Genes14
Associated Families14

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available5
All Organisms → cellular organisms → Archaea → Euryarchaeota → unclassified Euryarchaeota → Euryarchaeota archaeon1
All Organisms → cellular organisms → Bacteria1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage2
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Dinophyceae1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameGroundwater Microbial Communities From The Columbia River, Washington, Usa
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Sand → Unclassified → Sand → Groundwater Microbial Communities From The Columbia River, Washington, Usa

Alternative Ecosystem Assignments
Environment Ontology (ENVO)freshwater river biome → microcosm → sand
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Subsurface (non-saline)

Location Information
LocationUSA: Columbia River, Washington
CoordinatesLat. (o)46.372Long. (o)-119.272Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F010768Metagenome / Metatranscriptome299Y
F023108Metagenome211Y
F025224Metagenome / Metatranscriptome202Y
F026270Metagenome198N
F026867Metagenome196Y
F027438Metagenome / Metatranscriptome194Y
F039104Metagenome / Metatranscriptome164Y
F042872Metagenome157Y
F043284Metagenome156N
F048834Metagenome147N
F050335Metagenome / Metatranscriptome145N
F058798Metagenome / Metatranscriptome134Y
F072095Metagenome121N
F096710Metagenome104Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0209892_1003475Not Available1255Open in IMG/M
Ga0209892_1004537Not Available1050Open in IMG/M
Ga0209892_1006149All Organisms → cellular organisms → Archaea → Euryarchaeota → unclassified Euryarchaeota → Euryarchaeota archaeon878Open in IMG/M
Ga0209892_1006746Not Available834Open in IMG/M
Ga0209892_1007831All Organisms → cellular organisms → Bacteria768Open in IMG/M
Ga0209892_1009140All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage702Open in IMG/M
Ga0209892_1012728All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage585Open in IMG/M
Ga0209892_1015844Not Available519Open in IMG/M
Ga0209892_1015965All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Dinophyceae517Open in IMG/M
Ga0209892_1016857Not Available502Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0209892_1003475Ga0209892_10034751F072095VAVIRDLEKEGVLPATASQSYGSAQLSQTTALIDLQVKHRDLRNRLDRIEEILESLLKKSGVQS
Ga0209892_1003475Ga0209892_10034753F042872MTPQSIIDQIESGNCTVGSNPTPSESYHYNDLRRNGNTAVITEPKKKHYQQHSLLIRGGYPAEPAYHPNPSVARMWSAQR
Ga0209892_1004537Ga0209892_10045371F050335VALSITQQPDSYHPAFNDTNFVITESSGGIYTKDNFKFIANVKVAATSVAKLKAPIYFGSVNKGVFNIGRIMESYVSNNWSFTDTSPSGCVDSFSDYEVEFGYEYSPSATGTITEYLDLTSATGTVWNAALNPFDLVTYAQAQYLATSASAKFLTNVRTRYIHR
Ga0209892_1004537Ga0209892_10045372F026270RVIEKYPLLFEGGDEGYDGAVDQSPIVWLEIVDKIVKGDRTKWDFILDMPLIEFLNAMAFYKAKTKERQKRLEDAAGKGFNPYIVACLNEML
Ga0209892_1006149Ga0209892_10061493F025224MADAMWMPGSFFDNVDKFANSLGYQNAGVAMELAMMSWNSPEERDAFITSITNAEVQGGTEKNYIKRK
Ga0209892_1006746Ga0209892_10067464F039104MTNLKALVVKASINNIIKWRVYFAGELLATFENET
Ga0209892_1007831Ga0209892_10078312F026867MKLRKQDQALSLRQLGAAYGLGYVRIKQMRELSGFPLIAGKVIPSDFDQWRLMQTGLNLPRPADRLRSAAGKAHALASRSDSRVSWRQIANTLKDEAWLHELREGNGSSDF
Ga0209892_1009140Ga0209892_10091402F048834MAIPGVDWAAALDAYVAGDREEVVPPGWFTKIDIAKLWGKTPVYTNKVLTRMMKSGGAERKVFSIRIKICDRGSKVGHCR
Ga0209892_1010969Ga0209892_10109692F023108MGKLFIVIISILLYSCSAQYHLNKAIKKGYVCEDTLQMDTIRIATIDSVPVIVNNEIIYEKFITQKDTIVKWKTKNVYVPKTRIELKREYKIKIKTIYKDKVVEKAQARAEGKK
Ga0209892_1012728Ga0209892_10127281F058798MAEHKVEGGSMLLFIDPDGGTAYDTVVCLTSVSKSDSVTVVDASSACGPDKSPGTLELSYAFEGQHLQDPENGKISGTDLRILLRGEQTIGWKIAPEVPVEGDEIEEGTGYLSELSSTYSFDSVGTFTGTIQPYGTPTITISGGGGG
Ga0209892_1015844Ga0209892_10158441F043284KLNNTRDKALELIGKTIGLASDAGAIIQQARADGQDIVAICEEAGITEEVGKRYEKVAAAQHKLANGDADPGLMRQTYLRIGFLPDPITMSEPSEPKHFLFPIMQARQWLASRGVKFISQDKGLRAQFLAEAEPIVKTYNELKDSA
Ga0209892_1015965Ga0209892_10159652F010768VDNGGYNVHPVPPPNSEIKERIRKRYESKRIKIEKLLTLGYTTSGDP
Ga0209892_1016403Ga0209892_10164032F027438MTTRKSHKARGATYETDIRDWFRANGYDSERLARTGAKDEGDVVVRSGF
Ga0209892_1016857Ga0209892_10168571F096710MKDLVTKSALVSIFNSKQHDFLYIIKQVNTELFLPRVPKAVVKDMIKSEGLYNISYRIYTNEKGYESIYISKASKIVTK
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