Sample 3300021846

Basic Information
IMG/M Taxon OID	3300021846 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0114516 \| Gp0225743 \| Ga0210359
Sample Name	Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.591 (Metagenome Metatranscriptome)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Basic Information

IMG/M Taxon OID

GOLD Reference
(Study | Sequencing Project | Analysis Project)

Sample Name

Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.591 (Metagenome Metatranscriptome)

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	40099706
Sequencing Scaffolds	24
Novel Protein Genes	27
Associated Families	23

Dataset Contents

Total Genome Size

40099706

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta	4
All Organisms → cellular organisms → Eukaryota	3
All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes	1
Not Available	10
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris	2
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Amphipleuraceae → Amphiprora → Amphiprora paludosa	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Fragilariophyceae → Fragilariophycidae → Rhabdonematales → Grammatophoraceae → Grammatophora → Grammatophora oceanica	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta

All Organisms → cellular organisms → Eukaryota

All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes

Not Available

All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris

All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Amphipleuraceae → Amphiprora → Amphiprora paludosa

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria

All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Fragilariophyceae → Fragilariophycidae → Rhabdonematales → Grammatophoraceae → Grammatophora → Grammatophora oceanica

All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium

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

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)

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)	46.302	Long. (^o)	-123.036	Alt. (m)	N/A	Depth (m)	0
Location on Map

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Location Information

Location

USA: Washington

Coordinates

Lat. (^o)

46.302

Long. (^o)

-123.036

Alt. (m)

N/A

Depth (m)

Location on Map

Zoom:

Family	Category	Number of Sequences	3D Structure?
F000203	Metagenome / Metatranscriptome	1619	Y
F001346	Metagenome / Metatranscriptome	718	Y
F001418	Metagenome / Metatranscriptome	698	Y
F001506	Metagenome / Metatranscriptome	681	Y
F005443	Metagenome / Metatranscriptome	400	Y
F008361	Metagenome / Metatranscriptome	334	Y
F014219	Metagenome / Metatranscriptome	264	Y
F021217	Metagenome / Metatranscriptome	219	Y
F022790	Metagenome / Metatranscriptome	212	Y
F027700	Metagenome / Metatranscriptome	193	Y
F030135	Metagenome / Metatranscriptome	186	Y
F033314	Metagenome / Metatranscriptome	177	Y
F041518	Metagenome / Metatranscriptome	159	Y
F060086	Metagenome / Metatranscriptome	133	Y
F061006	Metagenome / Metatranscriptome	132	Y
F064269	Metagenome / Metatranscriptome	128	Y
F065810	Metagenome / Metatranscriptome	127	Y
F068326	Metagenome / Metatranscriptome	124	Y
F069529	Metagenome / Metatranscriptome	123	Y
F075465	Metagenome / Metatranscriptome	119	Y
F076772	Metagenome / Metatranscriptome	117	Y
F077370	Metatranscriptome	117	Y
F094641	Metagenome / Metatranscriptome	105	Y

Family

Scaffold	Taxonomy	Length	IMG/M Link
Ga0210359_101413	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta	716	Open in IMG/M
Ga0210359_107403	All Organisms → cellular organisms → Eukaryota	553	Open in IMG/M
Ga0210359_107769	All Organisms → cellular organisms → Eukaryota	608	Open in IMG/M
Ga0210359_123767	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta	586	Open in IMG/M
Ga0210359_126405	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes	2279	Open in IMG/M
Ga0210359_126716	Not Available	700	Open in IMG/M
Ga0210359_127238	Not Available	540	Open in IMG/M
Ga0210359_127599	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris	1108	Open in IMG/M
Ga0210359_131275	Not Available	642	Open in IMG/M
Ga0210359_138447	Not Available	643	Open in IMG/M
Ga0210359_140626	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Amphipleuraceae → Amphiprora → Amphiprora paludosa	579	Open in IMG/M
Ga0210359_151847	Not Available	528	Open in IMG/M
Ga0210359_154442	Not Available	523	Open in IMG/M
Ga0210359_154644	All Organisms → cellular organisms → Eukaryota	940	Open in IMG/M
Ga0210359_155468	Not Available	841	Open in IMG/M
Ga0210359_160270	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta	532	Open in IMG/M
Ga0210359_163616	Not Available	701	Open in IMG/M
Ga0210359_163925	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	2593	Open in IMG/M
Ga0210359_170052	Not Available	535	Open in IMG/M
Ga0210359_170735	Not Available	621	Open in IMG/M
Ga0210359_171482	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Fragilariophyceae → Fragilariophycidae → Rhabdonematales → Grammatophoraceae → Grammatophora → Grammatophora oceanica	632	Open in IMG/M
Ga0210359_172871	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris	610	Open in IMG/M
Ga0210359_175306	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	619	Open in IMG/M
Ga0210359_182447	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta	635	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0210359_101413	Ga0210359_1014132	F001506	NRILYENRCKCNEEFSIIKKRKIKTRSEGKPLQYPKSSEITSKTFQMKYQTSLSTTAKCLLNNFQNKYIYYAIDDILYLLKAKPVERDNLLAVLYSPILSLQNNFSVNFFDIWIRDVYIDEISKTNRFLKNDSTTLKEFNYITIKFFYKTRVPVKKQESLW
Ga0210359_107403	Ga0210359_1074031	F027700	TRPAICPLPSTDETNSLSLDQADKAGFTALEDHRKNSVIHEMKVYGISKKKERLLWHQRLGHCGDEKLARAHLFSDGIPEISYKAKTSIENCAVCLAANMRARDRGTGETRTATQPGQGLSIDFSFAGQYSKNANDPIKMRSNDYMGKNGETCYLLVYDHATERLDGVCRQSKAPPVAWLRRWL
Ga0210359_107769	Ga0210359_1077691	F027700	AEMSLDAADKAAISMIEDHPENSYQHELKLHALSAKAERLLWHQRLAHCGDEQLCRAHMHSDGVPEIKLGKDSALDSCPVCLAANMKSRNRGDGETRTATEPGQGLSIDFSFAGQHSKNATNPEQMRVNDYMGIHGETCYLLVYDHATERLDGVCRQSKAPPLAWLKKWLTKNVKDDVKDRYVFMDQGGELHRSKAIRDLFE
Ga0210359_110825	Ga0210359_1108251	F064269	VLRLITFLPLNVLMFMIPVLLAMCMVFACVPDVLYLLFGIDTKRSTSRKLKSFVPTALVNVKRYLGSTLHYFLSSTYNVVNTLLLPTKEQRLQRPSKRKALDRMFFMFLLMNHGRVSAKSARRTSYRVRPGLSEIPQAIPQDLSAEMLAPWDNIPQGWSQRLLNGNELKQFDPDNVIPVSETIDPNTGTNNPASWLIQSAPRLPEFQVPKLFILDQCTGATIMCLAGVVEKDSRLSVATFDSDTELVGIDNRSSVCMSPHRADFIGKLIKSK
Ga0210359_123767	Ga0210359_1237671	F001506	EFSIIKKRKPKTRSEGKPLEYPQSSEITSKTFQIKYHKNLSTTAKCILNSFHNKYIYYAIDDILYLLKSKPMERDNLLAVIYSPILSLQNNFSVNFFDIWIGEVYIDEISKNNKFLKNDLTTLKQFNYITIKFFYKTRTPVRKKESFW
Ga0210359_126405	Ga0210359_1264053	F005443	MLSYTLNTNEVKNSAGTEVEFQSWKQSDRYRIYAQINEGPSAPNHLTISHQESGTGLKRRRRSVVRVDKTTQSGIDPTLPITTSAYLVLDHPVGASSDNAEAANVIAQVLSFCASLGASTTILYDGTGNGATALLQGSL
Ga0210359_126716	Ga0210359_1267161	F077370	MNQPRIVNNKQSRNRRNNRKRILKNNSHQLAVPRPMSILGKTNDRAIDILVNIFAVNSLGTPFYSFAVSAGSPQVSANLTDLMILQFTEYSELAQIYGLVKLKKIQLGFTRSSNYIGGGTTILQNTPSIFLQASTIPYNVGTVSLQRAIAQSDNSIEIDLQTYDPKSYDILLPPHILSNNRANNQTFAFGSQTWISTRLNNVQNFPDLFLNLGSLATPTFDPSTTSGNSVLI
Ga0210359_127238	Ga0210359_1272381	F041518	MGDTQEDNYMADSHLIQALIQGTNNNNSICHQEVGQDILQDQPLVEAKALVEAVEVDPSMASAIQVEEEGLNQETLVANEVDLVGPQDSKLQMPDPVTRTAGRRKQANM
Ga0210359_127599	Ga0210359_1275991	F069529	LRQNRAKYIQDTKKGIFLGYRTNTLKNVVWYDPLTDRVKYGYHVRFDEGFNDLPLAQLPPNVVLMDRREERVPAETLTITIPPFTTSEHPFFHEDDVTVKVVCNSDMYGFELSEDDCMKRVYISGLKKDGKGTKGRRSCNTMCSSESATRRKYRGAYITAIDDEEIVTIDQAKEKFAELRAKKVESFTMILAREPKPSKAMTRRAYDELELPAFDLDDNLGEDYFAPEEDLEGDSSATYSQKTNEFGTDYVPSIGTKISKDFGSKGYFEGEVVSGPHNVTVEGDNMVVWKVCYEDGDREEMTASEIAHWKAPVKEARASKTKSKS
Ga0210359_131275	Ga0210359_1312751	F061006	NDIDNTLTWLRNRGVDEPQFGPEEPFKKAQSLPMPDSRTPEQKATDLDNVLNWVRNPRENDTPQTEPFKKIDQLLPKKPGQTPEDRAKDIDNALTWVRNRGVDQPELEPTSPFDKLNSIPIDRRTPEQKARDVEDILNWKRNPKENDTPKTEPFKKIDQLLPKKPGQSPEERANDIDNTLTWLRNRGVDEPQFGPEEPFKKAQSLPMPDSRTPE
Ga0210359_138447	Ga0210359_1384471	F021217	TNDKTVLWGFKWYTNKNPCRIRLICADGKTPIVPEGYGTVRIPADNAEGYVPIKCYYTPDIPNFILSPNSFKALLGKHYNGYKLECDDDKKSFRFSLNHKMRKSGSVLLRGTTRGGLCYTRPAVPPMPTTEGTAEMSLDMADRAAISMVEDHLKNLYRHEMKLHALSAKAERLL
Ga0210359_140626	Ga0210359_1406261	F033314	MSAGTVDFVVGVDKKLWIGSRLFENCKSFFGAQGAVFGSESFDHTDWIALPDDAAGYSVALVSWGWVGVIELGCKMFSVGV
Ga0210359_148280	Ga0210359_1482801	F075465	LLHDKLKQAAEWTKVSTSYNPLTLFRLIEKTVLAQTEDQYPFATVYDQEHALYSFRQELMTNAQWYEKFNTRVDVGEAIGVTRQHKVLLEFVAQETHNQAFTALGAVEQAAVRDDAEERYRSYVFLKQSGGQHGHLKQTLQNDFTTGDNHYPKNRQQALHLLDKFSKTVVPKVIESEGTAFAQDGGGRKGKPFDKEYWKDKECYKCHKLGHPASHCKQKAK
Ga0210359_151847	Ga0210359_1518471	F030135	EGLKDREEFAKLSSTSDIWHSTFIGCQLPDAIPPGTEDFDLVAGPLD
Ga0210359_154442	Ga0210359_1544421	F008361	EKATLAVENAETSKSRLDASVELKKATARLEAINYLS
Ga0210359_154644	Ga0210359_1546441	F060086	PFELDSNLLLSSGRHGRDRKRQYFLYDNETPLLGDLADLLY
Ga0210359_155468	Ga0210359_1554681	F022790	YRTNTLKNVVWYDPLTDRVKYGYHVRFDEGFNDLPLSKLPPNVVLMDRREERIPAETLTITIPPFTTSEHPFFHEDDVTVKVVCDSDLYGFELREDDCMKRVYISDFKKDGKGTKGRRSCNTICSTERATRRKYRRAYITAIDDEEIVTLNQAKEKLKELRNKNVDTFTMILAREPRPSKSMTRRAYDELELPEFDLDENLGEDYFASDGNLEGDSSMTASGEANAFGTDYAPPIGTKISKDFGTKGFFTGTVTSGPHIRDKDGDDVTVWKVQYEDGDRE
Ga0210359_160270	Ga0210359_1602701	F065810	NKYIYYAIDDILYSLKSKPIERDNLLAVLYSPILSLQNNFSVNFFDIWIREVYIDEISKNNKFLKNDSTTLKQFNYITIKFFYKTRVPVKKQASLW
Ga0210359_163616	Ga0210359_1636161	F014219	MILSINKQSLLLEFAGAKCCSKWVNSNENDWLLGATTGKCEEKDGELVCALRAR
Ga0210359_163925	Ga0210359_1639253	F001506	MNRILYENRCKCNEEFSIIKKRKIKTRSEGKPLQYPKSSEITSKTFQMKYQKNLSLTAKFILNNFQNKYIYYAIDDILYLLKSKPIERDNLLAILYSPILSLQNNFSVDFFEIWIREVFIDEISKTNKFLKNDSKTLKQSNYITIKFFYKIPVKKKESLWEF
Ga0210359_165052	Ga0210359_1650521	F000203	VGVRHALFPVPTLGAIQAAGFPTLFFRASEVFGLIAGPFSALRSLNY
Ga0210359_170052	Ga0210359_1700521	F068326	MNEARNLGVSNVTLRNWVGLNNSSSIIDYTTLQQNISSDEIDLTESERCRTFSNDIPGYHKTLLESSGVKDNVKDLNYSSAHCLHQNIQTLAHYLIDKIDTLQKTQLDIHHIEIITDRVFHNIEKLKNENRVNNSYVQSLENRTRNLEAKIDVLLMQNEIITQKC
Ga0210359_170735	Ga0210359_1707351	F001418	FAEEAEFTSSSGGVRAPSVNAKKELGSEERLETVPN
Ga0210359_171482	Ga0210359_1714821	F094641	HGVSFSQNYIYQKGVKKFGERGRKAAGKELDQLHQRNCYTPIDISAMTPEEKAQAMEALMFLQEKKDGTVKGRMVYNGKPTREWLSREDSASPTAALESIFLTSIIDAKEERDVMSADVPNAFIQTPMPDDNKKVIMKITGVLVHLMVEQAPEVYGPHVVCENGKRVLHVTVLKALCGMLVSSLLWCTKFKKDLEGCGFVFNPHDPCVAN
Ga0210359_172871	Ga0210359_1728711	F076772	VGINGKKVFSKKDAISMLRQLHDERAENLQLELAIERKLSSAETWRAVAEHNIMDPSAVPDVDHHHQLTLADIRSISAARYPHLDFSEASISTEEMEMVVQAIQSQAITPAEQAIGRFTRRKLRSLSTWDQWRAGEHKQLDHFHDLKMYGKPVRKPPGAIVLRPHWQYSIKRDGTRRSHNCCDGSPRSAPLLHGIASTYSSCV
Ga0210359_175306	Ga0210359_1753061	F001346	VKTFREVGDVKNDTADLWTKGNLRVKRRDPWHRANALPRAAADPALIGEDADKKTQTCLDLVRKPVAQPPVQAS
Ga0210359_182447	Ga0210359_1824471	F001506	MNRIFYERRCRCKEKISRTPKRKLSARSEGKALQYPDEMISKTFQIRYDKKLSSLAKFILNSFKNKYIYYAIDDILYLFKSNPVERESLLGLLYSPVLSLHNNLCINFFDIWIQEVYINETSKVNKFLHSQYQNLEPFTDITIKFLYKTRVP

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300021846: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.591 (Metagenome Metatranscriptome)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences