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 3300021263

3300021263: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.433 (Metagenome Metatranscriptome)



Overview

Basic Information
IMG/M Taxon OID3300021263 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0114516 | Gp0225727 | Ga0210343
Sample NameMetatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.433 (Metagenome Metatranscriptome)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size32080367
Sequencing Scaffolds18
Novel Protein Genes19
Associated Families10

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available5
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta2
All Organisms → cellular organisms → Eukaryota → Sar1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria4
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Pseudanabaenales → Leptolyngbyaceae → Leptolyngbya1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales1
All Organisms → cellular organisms → Eukaryota1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Synechococcales1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Oscillatoriophycideae → Chroococcales → Aphanothecaceae1
All Organisms → cellular organisms → Bacteria1

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 biome → estuary → sediment
Earth Microbiome Project Ontology (EMPO)Free-living → Saline → Water (saline)

Location Information
LocationUSA: Washington
CoordinatesLat. (o)46.313Long. (o)-123.997Alt. (m)N/ADepth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001506Metagenome / Metatranscriptome681Y
F004323Metagenome / Metatranscriptome443Y
F006508Metagenome / Metatranscriptome371Y
F012678Metagenome / Metatranscriptome278Y
F014031Metagenome / Metatranscriptome266Y
F021307Metagenome / Metatranscriptome219Y
F034767Metagenome / Metatranscriptome174Y
F042356Metagenome / Metatranscriptome158Y
F046726Metagenome / Metatranscriptome151Y
F061006Metagenome / Metatranscriptome132Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0210343_100647Not Available699Open in IMG/M
Ga0210343_109245Not Available742Open in IMG/M
Ga0210343_115100All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta917Open in IMG/M
Ga0210343_119265Not Available659Open in IMG/M
Ga0210343_128323All Organisms → cellular organisms → Eukaryota → Sar512Open in IMG/M
Ga0210343_128416All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta726Open in IMG/M
Ga0210343_137405All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria2710Open in IMG/M
Ga0210343_141564All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Pseudanabaenales → Leptolyngbyaceae → Leptolyngbya3782Open in IMG/M
Ga0210343_142205All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales2257Open in IMG/M
Ga0210343_143083All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria1618Open in IMG/M
Ga0210343_143810Not Available544Open in IMG/M
Ga0210343_148538Not Available505Open in IMG/M
Ga0210343_151423All Organisms → cellular organisms → Eukaryota2847Open in IMG/M
Ga0210343_152080All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Synechococcales5811Open in IMG/M
Ga0210343_159588All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Oscillatoriophycideae → Chroococcales → Aphanothecaceae589Open in IMG/M
Ga0210343_161927All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria1829Open in IMG/M
Ga0210343_162535All Organisms → cellular organisms → Bacteria730Open in IMG/M
Ga0210343_167890All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria1850Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0210343_100647Ga0210343_1006471F006508VALANAPSEAVADQCQAVKTQERIHGCVLTWFASRWRNHQPKRAEKPHSKSSAVRRWTAL
Ga0210343_109245Ga0210343_1092452F046726LGKISEQEKLEIIQTGFQLNEEGKISLKKYYERVSEANSLFQSKGYYIKYGTKLYKNLND
Ga0210343_115100Ga0210343_1151001F001506MNRILYDNRCRCNEEFSVTKKRKSTTRSEGKPLQYPKANEMTSQTFQIKYEKKLSSTAKAIFNSFHNKYIYYAIDDILYSLKGNLIERDSLLAILYSTILSLQNNFSVNFFDIWIREVYIQEISKMNPFLNQDSQTLTQFSYITIKLFYKTRVPVKKQESLW
Ga0210343_119265Ga0210343_1192651F006508VAVANAPLKAVADQSQVVKTRRPNRRRVLTWFASRWRNHQPKRAEKPHSK
Ga0210343_119265Ga0210343_1192652F042356VHQHGASDSGGFDQPFETAQRKPLKDGQKERMTRESHDGSAGRVKNFRAPAMLKTAPLACEQKAT
Ga0210343_128323Ga0210343_1283232F021307MNRILYENRCKCNEEFSITKKRKSNTRSEGKPLQYPKPSEIMSKTFQIKYHETLSPTAKFILNSFQNKYIYYAIDDILYSL
Ga0210343_128416Ga0210343_1284162F021307MNRILYESRCRCKEEISITPKRKLSARSEGKPLQYPNEMMSKTFQIRYDKKLSSLAKFILNSFKNKYIYYAIDDILDSLKLNLLERDNILAILYS
Ga0210343_137405Ga0210343_1374055F001506MNRILYENRCKCNEEFSIIKKRKIKTRSEGKPLQYPKSSEITSKTFQMKYQTSLSPTAKCLLNNFQNKYIYYAIDDILYLLKAKPVERDNLLAVLYSPILSLQNNFSVNFFDIWIRDVYIDEISKTNRFLKNDSTTFKEFNYITIKFFYKTRVPVKKQESLW
Ga0210343_141564Ga0210343_1415641F001506MNRILYENRCRCNEEFSLTKKRQSTTRSEGKPLQYPNYTESTSKTFQIKYDKKLSSLAKAILNSFQKKYIYYAIDDILYFLKGNSIEQENLLAILYSPILSLHNNFSINFFDIWIGEVYIEEISKVNKFLTKDSQTFTQFSYITIKLFYKTGVPIKKKESLW
Ga0210343_142205Ga0210343_1422052F046726LSKISEEDKIEIIQTGFRLNQEGKISLKKCSESTAEYSLFQLKGYSIKYKSIRRTKLYQNLKE
Ga0210343_143083Ga0210343_1430831F001506MNRILYENRCKCNEEFSIIKKRKIKTRSEGKPLQYPKSSEITSKTFQIKYQKSLSTTAKCILNSFQNKYIYYAIDDILYLLKSKPSDRDNLLAVLYSPILSLQNNFSVNFFDIWVREVYIDEISKTNKFLKNDSTTLKQFNYITIKFFYKTRVPVKKQESFW
Ga0210343_143810Ga0210343_1438101F061006KRIDQMLPKKAGQSPEDRANDIDNTLTWLRNRGVDEPQFGPEEPFKKAQSLPMPDSRTPEQKATDLDNVLNWVRNPKENDTPQTEPFKRMDQLLPKKPGQTPEDRAKDIDNALTWVRNRGVDQPESEPTSPFEKLNSLPIDRRTPEQKAKDVEDILNWKRNPKENDSPKTEPFKKIDQLL
Ga0210343_148538Ga0210343_1485381F004323MPLGDLRRSEGKATPAVAIHSPVTRDYPSRALSNVFQAAALRLF
Ga0210343_151423Ga0210343_1514232F034767MFGSKIGKCTLDILRGINATVWGGVEGADKVGKIVKTGLSGADVVIGTSHALEDLGCNDYVCGSLDIIGSVSSAVGLVLGNIPSTKSLTVITGSVTVGCRSVRYYCKRYGTFWGCTVAAGEGIKKSVKFIINK
Ga0210343_152080Ga0210343_1520804F001506MNRILYENRCKCNEEFSIIKKRKIKTRSEGKPLQYPKSIEITSKTFQMKYQKSLSTTAKCILNSFQNKYIYYAIDDILYSLKSKPIERDNLLAVLYSPILSLQNNFSVNFFDIWIREVYIDEISKNNKFLKNDSTTLKQFNYITIKFFYKTRVPVKKQASLW
Ga0210343_159588Ga0210343_1595883F012678MLNQHSLEEIGDIHNLLEDIKKEYEEGLKPILIKNSPERFKNPHTVPKLKKIQINRCLGL
Ga0210343_161927Ga0210343_1619273F001506MNRILYENRCRCNEEFSITKKRKTTTRSEGKPLQYPKSNEVLSQTFQIKYDKQLSATAKVILNSFQNKYIYYAIDDILYLLKGNPIERDNLLAILYSPVLSLQNNFSINFFDIWIREVYIEKMSKVNKFLTNDSQTLEQFSYITIKLFYKTRVPVKKQESLW
Ga0210343_162535Ga0210343_1625351F014031MRRHRGRVGLMAVAIMGVLVSGASADIVTERSASVLVFPKVIANGTRDTLIQITNTSNSMVHAHCFYVNAAPTFRDLPPDPVLNPPLWQEIDFDIWLTKQQPTYWRVSTGRQDNYIEGIDDACSFDPRNLDCPNAGFDPGAVPPVVDDFVGELKCVETDQVGAPISGNHLKGEATVITYD
Ga0210343_167890Ga0210343_1678901F021307MNRILYENRCKCNEEFSIIKKRKIKTRSEGKPLQYPKSSEITSKTFQIKYQKNLSTTAKCILNSFQNKYIYYAIDDILYLLKSKPSERENLLAVLYSPILSLQNNFSVNFFDIW
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