Sample 3300021274

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 3300021274

3300021274: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.268 (Metagenome Metatranscriptome)

Overview

Basic Information
IMG/M Taxon OID	3300021274 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0114516 \| Gp0225711 \| Ga0210327
Sample Name	Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.268 (Metagenome Metatranscriptome)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	44393839
Sequencing Scaffolds	16
Novel Protein Genes	18
Associated Families	13

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	3
Not Available	7
All Organisms → cellular organisms → Eukaryota	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Synechococcales	2

Ecosystem and Geography

Ecosystem Assignment (GOLD)
Name	Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series
Type	Environmental
Taxonomy	Environmental → 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
Location	USA: Washington
Coordinates	Lat. (^o)	46.313	Long. (^o)	-123.997	Alt. (m)	N/A	Depth (m)	0
Location on Map

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Associated Families

Family	Category	Number of Sequences	3D Structure?
F000203	Metagenome / Metatranscriptome	1619	Y
F000344	Metagenome / Metatranscriptome	1257	Y
F001346	Metagenome / Metatranscriptome	718	Y
F001506	Metagenome / Metatranscriptome	681	Y
F006508	Metagenome / Metatranscriptome	371	Y
F012917	Metagenome / Metatranscriptome	276	Y
F014031	Metagenome / Metatranscriptome	266	Y
F021307	Metagenome / Metatranscriptome	219	Y
F034767	Metagenome / Metatranscriptome	174	Y
F035541	Metagenome / Metatranscriptome	172	Y
F046726	Metagenome / Metatranscriptome	151	Y
F047147	Metagenome / Metatranscriptome	150	Y
F065810	Metagenome / Metatranscriptome	127	Y

Associated Scaffolds

Scaffold	Taxonomy	Length	IMG/M Link
Ga0210327_114554	All Organisms → cellular organisms → Bacteria	10783	Open in IMG/M
Ga0210327_117756	Not Available	633	Open in IMG/M
Ga0210327_123508	Not Available	567	Open in IMG/M
Ga0210327_124211	All Organisms → cellular organisms → Eukaryota	1229	Open in IMG/M
Ga0210327_125949	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	3142	Open in IMG/M
Ga0210327_130998	Not Available	1133	Open in IMG/M
Ga0210327_136574	All Organisms → cellular organisms → Bacteria	1120	Open in IMG/M
Ga0210327_138175	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta	814	Open in IMG/M
Ga0210327_138214	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta	581	Open in IMG/M
Ga0210327_139099	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Synechococcales	2761	Open in IMG/M
Ga0210327_144236	Not Available	815	Open in IMG/M
Ga0210327_148357	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Synechococcales	5130	Open in IMG/M
Ga0210327_153014	All Organisms → cellular organisms → Bacteria	514	Open in IMG/M
Ga0210327_169182	Not Available	904	Open in IMG/M
Ga0210327_177935	Not Available	507	Open in IMG/M
Ga0210327_187134	Not Available	1784	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0210327_114554	Ga0210327_1145541	F065810	IDDILYLLKSNPVERESILGLLYSPVLSLHNNLCINFFDIWIQEVYINETSKGNKFLTNEYQNLEQFTYITIKFLYKTRVPVKKADSLW
Ga0210327_117756	Ga0210327_1177561	F006508	VALANAPSKAVAVQCQTVKTRKRNRRRVLTWFASRWRNHQPKRAEKPHSKSG
Ga0210327_122368	Ga0210327_1223681	F000203	RHALFPMPTLGAIQAAGFPTLFSMASGMFGLIAGPSSALRSLNY
Ga0210327_123508	Ga0210327_1235081	F001346	VVWAGPVKTFRKVGDVKNDTADLWTKGNLRVKRRDPWHRANALPRAAADPALIGEDADKKTQTCLDLVRKPVAQPPAEAS
Ga0210327_124211	Ga0210327_1242113	F001506	MNRILYENRCKCNEEFSIIKKRKIKTRSEGKPLQYPKSSEITSKTFQIKYQKNLSTTAKCILNSFQNKYIYYAIDDILYLLKSKPSERENLLAVLYSPILSLQNNFSVNFFDIWIREVYIDEISKNNKFLKNDLTTLKQFNYITIKFFYKTRIPVKKQESFW
Ga0210327_125949	Ga0210327_1259496	F021307	MNRILYESRCRCKEEISITPKRKLSARSEGKPLQYPNEMMSKTFQIRYDKKLSSLAKFILNSFKNKYIYYAIDDILYLLKSNP
Ga0210327_130998	Ga0210327_1309982	F046726	LGKISEEEKIQIIQRGFQLQAEGKISLKKYYEGTETDSLFQLKGYRIKYEAIRKNKFYQSLKA
Ga0210327_136574	Ga0210327_1365741	F012917	ILNGMILFKFLRFPLNDCGYYDKYSSIPEINRAWDKKKHLKRKRWSQE
Ga0210327_138175	Ga0210327_1381752	F001506	MNQILYATKCRCGERFSVTKKQTRTRKSSKRSEGKPLQYPKSNEITSKTFQIKYEKRLSSVAKLVLNSFQNKYIYYAIDDLLYSFQFNASERNNLLAILYSPVLSLQNNFSIDFFNIWIDEIYIQEISKVNKFFKNNSSNFQPYSYITIKLLYKMPK
Ga0210327_138214	Ga0210327_1382141	F034767	MEFKMFKSKIGGATLDILRGVNATVWGGVEEAQKVGQIVKTGISGADVVIGTSHALEDFGCNDYVCGSLDVIGSVSSAVGLVLGNIPSTKPLTLITGSVTIGCRSVRYYCKNYGTFWGCTVAAGQGIKESVKFIINK
Ga0210327_139099	Ga0210327_1390992	F001506	MNRILYENRCKCNEEFSIIKKRKIKTRSEGKPLQYPKSSEITSKTFQMKYQTSLSTTAKCLLNNFQNKYIYYAIDDILYLLKTKPVERDNLLAVLYSPILSLQNNFSVNFFDIWIRDVYIDEISKTNRFLKNDSTTLKEFNYITIKFFYKTRVPVKKQESLW
Ga0210327_144236	Ga0210327_1442362	F000344	MRPKSAHAALSGVGEHPARESESAKWCAEGKERVANAHPH
Ga0210327_148357	Ga0210327_1483573	F001506	VKKKWLFQRCIWNKEFSMTKNRKLPTKKKGEILPYPESSEIQSKTFQMKYQKNLSLTAKFILNNFQNKYIYYAIDDILYLLKSKPIERDNLLAILYSPILSLQNNFSVDFFEIWIREVFIDEISKTNKFLKNDSKTLKQSNYITIKFFYKIPVKKKESLWEF
Ga0210327_153014	Ga0210327_1530141	F014031	MRRHRGRVGLMAVAIMGVLVSGASADIVTVRSASVLVFPKVIANGTRDTLIQITNTSNSMVHAHCFYVNAAPTFRDLPPDPVLNPPLWQEIDFDIWLTKQQPTHWVVSRGRAVNPQDPVCDRL
Ga0210327_169182	Ga0210327_1691821	F035541	VKRLALLFTLAILATCVIAPALYAKANTTDLNNIPITDTLEAGTFEWDVVGRYNEDFPRGRRVSTRLFGSLFEDFEFGMSWGVSRMAGPLEVALKYKVLDEYEGRFPVSLAVGAEGITGNYQRTGYDPTYYGVLGVHDVHLGGWWDWYVGYANNPTGFDDEDGSLFGGFKYWIDDDLQVNVDYWGYADNEEYLIAGGLNYDWVNHLGVQCWVEQDSVTEDTVIVAQFTARADMRDLHAMVSDPE
Ga0210327_177935	Ga0210327_1779351	F047147	EGPVREEQLLHDMCLLGAMTVEITQILTRAGSKYV
Ga0210327_181323	Ga0210327_1813232	F046726	NGENFIPLGKISEEDKIQIIKTGFRMNQEGKISLKKYYESTNPYSLFQSKGYSMKYEAIRKTNLYKQLKPSNN
Ga0210327_187134	Ga0210327_1871341	F046726	MNHSLGKILEDEQIEIIKLGFQLQAEGKISLKKYYESTDPYSLFQSKGYKIKYESIRRTKLYQQLKFQL

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