Sample 3300022366

Basic Information
IMG/M Taxon OID	3300022366 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0114516 \| Gp0225728 \| Ga0210344
Sample Name	Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.437 (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.437 (Metagenome Metatranscriptome)

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	43459201
Sequencing Scaffolds	24
Novel Protein Genes	28
Associated Families	23

Dataset Contents

Total Genome Size

43459201

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	2
Not Available	15
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris	3
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Fragilariophyceae → Fragilariophycidae → Rhabdonematales → Grammatophoraceae → Grammatophora → Grammatophora oceanica	1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Panarthropoda → Arthropoda → Mandibulata → Pancrustacea → Hexapoda → Insecta → Dicondylia → Pterygota → Neoptera → Endopterygota → Hymenoptera → Apocrita → Parasitoida → Chalcidoidea → Pteromalidae → Pteromalinae → Nasonia → Nasonia vitripennis	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

All Organisms → cellular organisms → Bacteria

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

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 → Fragilariophyceae → Fragilariophycidae → Rhabdonematales → Grammatophoraceae → Grammatophora → Grammatophora oceanica

All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Panarthropoda → Arthropoda → Mandibulata → Pancrustacea → Hexapoda → Insecta → Dicondylia → Pterygota → Neoptera → Endopterygota → Hymenoptera → Apocrita → Parasitoida → Chalcidoidea → Pteromalidae → Pteromalinae → Nasonia → Nasonia vitripennis

All Organisms → cellular organisms → Bacteria → Terrabacteria group

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)	46.27	Long. (^o)	-123.946	Alt. (m)	N/A	Depth (m)	0
Location on Map

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Location Information

Location

USA: Washington

Coordinates

Lat. (^o)

46.27

Long. (^o)

-123.946

Alt. (m)

N/A

Depth (m)

Location on Map

Zoom:

Family	Category	Number of Sequences	3D Structure?
F001314	Metagenome / Metatranscriptome	725	Y
F001758	Metagenome / Metatranscriptome	640	Y
F006508	Metagenome / Metatranscriptome	371	Y
F007352	Metagenome / Metatranscriptome	352	Y
F011154	Metagenome / Metatranscriptome	294	Y
F017072	Metagenome / Metatranscriptome	243	Y
F020912	Metagenome / Metatranscriptome	221	Y
F021217	Metagenome / Metatranscriptome	219	Y
F021307	Metagenome / Metatranscriptome	219	Y
F024483	Metagenome / Metatranscriptome	205	Y
F038082	Metagenome / Metatranscriptome	166	Y
F042355	Metagenome / Metatranscriptome	158	Y
F042669	Metagenome / Metatranscriptome	157	Y
F043774	Metagenome / Metatranscriptome	155	Y
F047147	Metagenome / Metatranscriptome	150	Y
F052976	Metagenome / Metatranscriptome	141	Y
F056191	Metagenome / Metatranscriptome	138	Y
F057386	Metagenome / Metatranscriptome	136	Y
F064269	Metagenome / Metatranscriptome	128	Y
F075465	Metagenome / Metatranscriptome	119	Y
F076772	Metagenome / Metatranscriptome	117	Y
F078934	Metagenome / Metatranscriptome	116	Y
F094641	Metagenome / Metatranscriptome	105	Y

Family

Scaffold	Taxonomy	Length	IMG/M Link
Ga0210344_100597	All Organisms → cellular organisms → Bacteria	2030	Open in IMG/M
Ga0210344_100665	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	1945	Open in IMG/M
Ga0210344_101095	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	1591	Open in IMG/M
Ga0210344_103879	Not Available	973	Open in IMG/M
Ga0210344_104511	Not Available	920	Open in IMG/M
Ga0210344_106368	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris	804	Open in IMG/M
Ga0210344_107077	Not Available	773	Open in IMG/M
Ga0210344_108640	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris	713	Open in IMG/M
Ga0210344_109825	Not Available	678	Open in IMG/M
Ga0210344_110344	Not Available	665	Open in IMG/M
Ga0210344_111372	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris	641	Open in IMG/M
Ga0210344_111417	Not Available	640	Open in IMG/M
Ga0210344_111492	Not Available	638	Open in IMG/M
Ga0210344_113469	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Fragilariophyceae → Fragilariophycidae → Rhabdonematales → Grammatophoraceae → Grammatophora → Grammatophora oceanica	600	Open in IMG/M
Ga0210344_114879	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Panarthropoda → Arthropoda → Mandibulata → Pancrustacea → Hexapoda → Insecta → Dicondylia → Pterygota → Neoptera → Endopterygota → Hymenoptera → Apocrita → Parasitoida → Chalcidoidea → Pteromalidae → Pteromalinae → Nasonia → Nasonia vitripennis	577	Open in IMG/M
Ga0210344_117674	Not Available	541	Open in IMG/M
Ga0210344_117935	Not Available	538	Open in IMG/M
Ga0210344_117993	Not Available	538	Open in IMG/M
Ga0210344_118816	Not Available	529	Open in IMG/M
Ga0210344_118962	Not Available	527	Open in IMG/M
Ga0210344_119155	Not Available	526	Open in IMG/M
Ga0210344_119466	Not Available	523	Open in IMG/M
Ga0210344_119620	Not Available	521	Open in IMG/M
Ga0210344_120292	All Organisms → cellular organisms → Bacteria → Terrabacteria group	515	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0210344_100597	Ga0210344_1005971	F042355	MSSDLKKINKKSSRRMANVQEPKFVERLIKISRVSKVTKGG
Ga0210344_100665	Ga0210344_1006651	F021307	MNRILSETKSRCNGKLSINKKKNRREGKPLPYLKSTDEVIPISKTFQIKYKRKLSSVAKLVLNSFQNKYIYYAIDDILYSFKSNPTERE
Ga0210344_101095	Ga0210344_1010953	F021307	MNRILYENRCKCNEEFSITKKRKSPTKSEGKPLQYPKPNEIISKTFQIRYDKKLSTTSKFILNSFQNKYIYYAIDDILYSFKSNPIERDNLLAVLYSPILSLQNNSSINFFDIWIHQVSIDQISK
Ga0210344_101944	Ga0210344_1019442	F064269	VLRLITFLPLSVLMFMIPVLLAVCMVFACVPKVLYLIFGIETKRSTSRKLKSLIPTTLVNVKRYLGSTLHYFLSSTNNVVNTLLLPTKEQRLQRPSKRKALDRMFFMFLLMKHGRVSAKSARRTSYRFRPGLSEIPQAIPQDLSAEMLAPWDNIPQGWSQ
Ga0210344_102942	Ga0210344_1029421	F038082	TDGLKTRLVALPDFTTSIQDDPLALLKAIKTCVHKNAVTQYPPVTIHQHWARLLRLTQNSDKDPPTYAKRFEQQLETVKGYVGNTFTDGFAEHMPDYKANAYKHDAGKITSLLATHVTDDAARQALATDLLDLFSHYKPKETQAQLDLKAQVRSEFEAYLFLRSASKAKYGSQNFAATILSWPGPLP
Ga0210344_103879	Ga0210344_1038791	F078934	MCMTSQPSVLRLQAQPIGQLLRGSPVLSGEGETFVVRSYFVSSGFTSELVLGMPYVDSEPASKP
Ga0210344_104511	Ga0210344_1045112	F047147	MCVIIVAVTEGLVREEQLLHDMCLLSATTVEITQILTRAGPILGL
Ga0210344_106368	Ga0210344_1063681	F076772	ENSTADKMYASHKSTLKNVKGAYLVGINGKKVFSKEDAISMLRQLHDERAENLQLELAIERKLSSAEAWRAVAEHNIMDPSAVPDVDHHHQLTLADIRSISAARYPHLDFSEASISTEEMEMVVQAIQSQAITPAEQAIGRFTRRKLRSLSTWDQWRAGEHKQLDHFHDLKMYGEPVRKPPGAIVLRPHWQCSIKRDGTRRSRNCCDGSPRSAPLLHGIASTYSSCVEQPVQRLFFALAARENYRVYGGDAQDAYAHSPPPKTPTFVS
Ga0210344_107077	Ga0210344_1070771	F006508	VALANAPSEAVADQCQAVKTQERIHGCVLTWFASRWRNHQPKRAEKPHSI
Ga0210344_108640	Ga0210344_1086401	F075465	SEKTQESNEWRSYRERTTQLTKNRGQAYSLILGQCTQMLQDKMKQDADWNTVSTSYDPLQLYRLIEKTILAQTEDQYPFATVYDQELGLYSFRQEIMTNAQWYERFNTKVDVANAIGVTRQHKVLLEWVSQETHNQAFDTLTPQQKETVRADAEERYLAYAFLRQSGKQHATLRVDLQNDFTTGDNRYPRDRQQTLHLLDKYARTTVYKPPVQSEGSSFTQKGGKDKGDKGRAKGNQ
Ga0210344_109825	Ga0210344_1098251	F006508	VALANAPSKAVADQCQMVKTRKRNRRRVLTWFASRWRNHQPKRAEKPHSKSGFA
Ga0210344_110344	Ga0210344_1103441	F024483	GIFLGYRTNTLKNVVWCDPLTDRVKYGYHVRFDEGFNDLPLSKLPPNVVLMDRREERVRVETLIITIPPFTTSEHPFFHEDDVTVKVVCDSNLYGFELREDYCMKRVYISDFKRDGKGVKSRCSCNTICSTERATRRKYRGAYITAIDDEEIVTLEQAKEKLKELRNKKVDTFTMMLAQEPRPSKSMTRRAYDELELPDFDLDENLGEDYFATEGNLEGNS
Ga0210344_110466	Ga0210344_1104661	F052976	RNDFKSQRGLSKHKLENKACRAHLYARFGSKADSKIAAAYLAVDTVHKPQACDAGSQNAMHYSDMSAGLGAKRAKFMSLPDKNFVSAWAMKAQSLLEQSQAELDSDSDSDAGMYDAENDVMLPPTGESSSARQNIMLDNFKDYAKRANDFVPPDANKFVTAIALLQTLRRTKASLATYEAIMRWKLESQGLLHPGESLAKSPHFMSRDEVYRKLK
Ga0210344_111372	Ga0210344_1113721	F075465	FEQQAEVAIKMSDSKKMQYSNKWRTQQERNSALMKNQGQAFSLILMQCTQLLKDRMKQDADWNTASTSYDPLTLYRLIKKTVLAQTDDQYPFAMVYEQEHAFYMFRQENLTNPQWYERFNMKIDVGDAIGVTRQHKVLLEYVARELHNQDFATLGVAEQEAVWADAEERYISYVFLKQSGAQHGTLKVDLKNDFTTGDNHFPKTCQQTLHLLN
Ga0210344_111417	Ga0210344_1114171	F056191	VLTDENFKSFYSGGSMRASVKLEGIDGNTPQERVE
Ga0210344_111492	Ga0210344_1114921	F017072	MRMRDLAVGSDEKPLRTESSSPETFRFRMNRSHPEGEQLLLCISTVRAALAGSNQIEAAQRKTPKGGQKERGHREEHGNSAGSVKNFQAPAMLKTTPLDCEIKCNLREKRRDPWFRANASSKAMADPGLVVKTRTRDPQACLDLVRKPVAQPPAKAS
Ga0210344_113469	Ga0210344_1134691	F094641	IKKFGERGRKAAGKELDQLHQRNCYTPIDISAMTPEEKAQAMEALMFLQEKRDGTVKGRMVYNGKPTREWLSREDSASPTAALESIFLTSIIDAKEERDVMSADVPKAFIQTPMPDDNKKVIMKITGVLVHLMVELAPEVYGPYVVYENGKKVLYVTVLKALYGMLVSSLLWYTKFKKDLEGSGFVFNLCDPCVANKMI
Ga0210344_114879	Ga0210344_1148791	F042669	DFALGCRQESTAKNVYATIGTKLTLHNEAEAPFEYLGLVDSFDGYDVLQTRDYIKLSAESYIRRLLKAHGWENPSPRESSNKPKPPLHESDVANLFNLAAGPVENTPEHKALEAEHGFGYRSVLGEILFAYVLCRPDIGYAVTTLAKFSTAPNALHYKSLKHLAIYLRQTQNWGIMYWRTEPVVSLPEVPYS
Ga0210344_117674	Ga0210344_1176742	F001758	GWFNSSKTGLQGAAAEAGFTSSSGGVRAPSVNAKKELGDEER
Ga0210344_117935	Ga0210344_1179351	F017072	MRMRDSAARSDEKPLRVESSSSSWFRAWANRSHPEGGQLLLCISTVRTALADLNQIKTAQRKTPKGGQKERTHREEHGNSAGSVKNFQAPAMLKTTPLDCEIKRNLREKRRDPWPRANAPLKAVADPEPVVKTRNKDP
Ga0210344_117935	Ga0210344_1179352	F057386	IPGDWGKAGSGWLTRLLQTAPQGATEAEFTSSSGGVRTPSNANEGLGSEKR
Ga0210344_117993	Ga0210344_1179931	F007352	VDRKLLSTTIHTPFNCPLDPYHGLQYWVDASLEKTVLADGTIFFHISIDEKMYMKNPVPCRKDTYASIRRWYNTFQETSMQYGIFVFPLWLFRKHHGGEWGFTMGDTADDNVPTNLRMTCLQSSTIIYQVLSQSTMFPAGSYLHDVVASCYGNGLKALKMILQRAHPAFVDEPATLVTS
Ga0210344_118816	Ga0210344_1188161	F020912	MVATVQQYGMGGSGGHCKVIRQMKDAERRDKVSIRFGKDTESRQDS
Ga0210344_118962	Ga0210344_1189621	F043774	LPSITAELLAGARALSLADRHHFKLNLSDLLDKSMQYKRNWLLNVIAARQRFERQQANFEGIQTLSIANSKLIKWMATGQAS
Ga0210344_119155	Ga0210344_1191551	F011154	MRSDEKPLRIESSRPGRFRAWANRSYPEGIRLLLCISTGGRLWRPPEGGLPNERRRKAGQSERPNREEHAASAGPVKTFQAVGDVKNDTADLWTKGNLRVKRRDPWHRANALSKAAADPALSGEDADQKTQTCLDLVRKPVAQPPAQAS
Ga0210344_119466	Ga0210344_1194661	F021217	ANRYKAHLDGGSQASTTNDKAVLWGFKWYTNKNPCRIRLICADGKTPIVPEGYGTVRIPADNAEGYVPIKCYYTPDIPNFILSPNSFKALLGKHYNGYKLECDDDKKNFRFSLNHKMRKSGSVLLRGTTRGGLCYTRPAIPPMPTTEGTAEMSLDMADKAAISMVEDHPKNSYR
Ga0210344_119620	Ga0210344_1196201	F021217	GYGTVRIPADNAEGHVPIKCHCTPDIPNFILSPNSFKALLGKHYNGYKLECDDDKKNFRFSLNHKMRKSGSVLLRGTTRGGLCYTRPAIPPMPTTEGTAEMSLDMADRAAISMVEDHPKNSYRHEMKLHALSAKAERLLWHQRLAHCGDEQLCRAHMFSDGIPEITRGKDSAL
Ga0210344_120292	Ga0210344_1202921	F001314	MWILFQVPCPTTDGQSARDLYDKRVTGITEAMQASAEQHGCQFHRAWHASDGSAFYAIAKWESREGASAFFEEWQIEDEPGEIAVILEGDVGLVPQP

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300022366: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.437 (Metagenome Metatranscriptome)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences