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 3300022370

3300022370: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.182 (Metagenome Metatranscriptome)



Overview

Basic Information
IMG/M Taxon OID3300022370 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0114516 | Gp0225704 | Ga0210320
Sample NameMetatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.182 (Metagenome Metatranscriptome)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size57539366
Sequencing Scaffolds11
Novel Protein Genes14
Associated Families14

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta2
Not Available7
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Ignavibacteriae → Ignavibacteria → unclassified Ignavibacteria → Ignavibacteria bacterium1
All Organisms → cellular organisms → Eukaryota → Sar1

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)46.302Long. (o)-123.036Alt. (m)N/ADepth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000203Metagenome / Metatranscriptome1619Y
F001506Metagenome / Metatranscriptome681Y
F006508Metagenome / Metatranscriptome371Y
F008361Metagenome / Metatranscriptome334Y
F011154Metagenome / Metatranscriptome294Y
F021307Metagenome / Metatranscriptome219Y
F026908Metagenome / Metatranscriptome196Y
F027192Metagenome / Metatranscriptome195Y
F034767Metagenome / Metatranscriptome174Y
F037756Metagenome / Metatranscriptome167Y
F053305Metagenome / Metatranscriptome141Y
F069754Metagenome / Metatranscriptome123Y
F069879Metagenome / Metatranscriptome123Y
F077370Metatranscriptome117Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0210320_1005261All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta989Open in IMG/M
Ga0210320_1007163All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta879Open in IMG/M
Ga0210320_1010042Not Available768Open in IMG/M
Ga0210320_1010046Not Available768Open in IMG/M
Ga0210320_1012000All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Ignavibacteriae → Ignavibacteria → unclassified Ignavibacteria → Ignavibacteria bacterium716Open in IMG/M
Ga0210320_1012669Not Available702Open in IMG/M
Ga0210320_1012852Not Available698Open in IMG/M
Ga0210320_1015846Not Available641Open in IMG/M
Ga0210320_1016379Not Available632Open in IMG/M
Ga0210320_1017234Not Available619Open in IMG/M
Ga0210320_1023780All Organisms → cellular organisms → Eukaryota → Sar545Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0210320_1005261Ga0210320_10052611F034767MFGSKIGKCTLDILRGINATVWGGVEGADKVGKIVKTGLSGADVVIGTSHALEDLGCNDYVCGSLDIIGSVSSAVGLVLGNIPSTKSLTVITGSVTVGCRSVRYYCKRYGTFWGCTVAAGEGIKKRVKFIINK
Ga0210320_1007163Ga0210320_10071631F001506MKRILYENRCKCNEEFSIIKKRKIKTRSEGKPLQYPKSSEITSKTFQMKYQTSLSTTAKCLLNNFQNKYIYYAIDDILYSMKAKPVERDNLLAVLYSPILSLQNNFSVNFFDIWIREVYIDEISKNNKFLKNDLTTLKEFNYITIKFFYKIRVPVKKQESLW
Ga0210320_1009087Ga0210320_10090871F000203AGVRHTLFPMPTLGATWAAGFPTLFSVAKRVSGLVAGPSSTFRSLNY
Ga0210320_1010042Ga0210320_10100421F008361IIDVELNEATQELEKATLAVEEAETSKDRLDASVELKKATARLEAMNYLS
Ga0210320_1010046Ga0210320_10100461F037756VGVRQALFPVPTFGAHLAAAAGFPTPFSAANGVSGLVAGPSNLLQG
Ga0210320_1012000Ga0210320_10120001F027192MKRFMFVLALLLVVGLSTVLAQSEAVTLVTATVESELILTNLDADWGLFSPGQNYTITPGAFKEPPGPGEAAGDQVESAGFEVEGNPNSEVLISLVLPAAFTSEDENGTMPLSNWTYGWNFDDDPSVAFSAAGPVTGSAVSVIIGGGAITGLFLGADVSVPTTAYTGGYIAQIIGSATYTGN
Ga0210320_1012669Ga0210320_10126691F077370QPRIVNNKQSRNRRNNRKRILKNNSHQLAVPRPMSILGKTNDRAIDILVNIFAVNSLGTPFYSFAVSAGSPQVSANLTDLMILQFTEYSELAQIYGLVKLKKIQLGFTRSSNYIGGGTTILQNTPSIFLQASTIPYNVGTVSLQRAIAQSDNSIEIDLQTYDPKSYDILLPPHIVSNNRANNQTFAFGSQTWISTRLNNVQNFPDLFLNLGSLATPTFDPSTTSGNSVLIGQI
Ga0210320_1012852Ga0210320_10128522F026908LIWFAGRWRNHQSKRAEKPHSKSSSGDALDGPATRPKTPLAVVNGVGKPAAARKGVRLMSARERELGELPSP
Ga0210320_1015846Ga0210320_10158461F069754SDWTQQDVTETSWYWGRVEFTETRGIAHWHFLAKIPHTLLTELLGRMIHNGRVVRNELKRGNIIESKREQAWEMIEMGLLASRYVALFSQSLSMASFYMEDVGIDGHDDKKVIKLETLRDEFVKNYKQGNINLNTHPIMRRFDDPECNDNVYHEMASVAAISCVHNCMPLSCGGNPLDGAGCRFDMPKKTLKHTVCAVMQVNANQNETRVLLR
Ga0210320_1016379Ga0210320_10163791F053305MLKKSLSIVLTALFVFSFIAVGTVSAAEVKGEVVSVNAETGEMVIKDDAGEMKTLMADPKVVDLKMLKEGDMVNVES
Ga0210320_1017234Ga0210320_10172341F006508VALANAPSEAVADQCQAVKTQERIHGCVLTWFASRWRNHQPKRAEKPHSKFSAVRRWTAL
Ga0210320_1021984Ga0210320_10219842F069879GTTEMGVFLRHSDHGSLAGIRFGVPLTPAKELPPWRFRPRLPDLYTYEQRTTVFTEVNVIRSDIGRLLTTNHEIERVYWNRDRLYPAYIRQHVDTLKQVVRRWIDDVP
Ga0210320_1023780Ga0210320_10237801F021307MNRILYENRCRCNEEFSLTKKRQSTTRSEGKPLQYPKSNEVLSQTFQIKYDKQLSATAKVILNSFQNKYIYYAID
Ga0210320_1028165Ga0210320_10281651F011154MRSDEKPLRIESSRPGRFRAWVNRSYPEGIRLLLCISTGGRLWRSPRGGQPKERRRKAGQSERSNREGHAVWAGPVKTFREVGDVKNDTADLWTKGNLRVKRR
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