Sample 3300021852

Basic Information
IMG/M Taxon OID	3300021852 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0114516 \| Gp0225700 \| Ga0210317
Sample Name	Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.23 (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.23 (Metagenome Metatranscriptome)

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	88054539
Sequencing Scaffolds	30
Novel Protein Genes	36
Associated Families	34

Dataset Contents

Total Genome Size

88054539

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
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 → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Bacillariales → Bacillariaceae → Nitzschia → Nitzschia inconspicua	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Corethrophycidae → Corethrales → Corethraceae → Corethron → Corethron hystrix	1
Not Available	16
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris	2
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Ignavibacteriae → Ignavibacteria → unclassified Ignavibacteria → Ignavibacteria bacterium	2
All Organisms → cellular organisms → Eukaryota → Sar	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Synechococcales	1
All Organisms → cellular organisms → Eukaryota	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	1
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → unclassified Gemmatimonadetes → Gemmatimonadetes bacterium	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

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 → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Bacillariales → Bacillariaceae → Nitzschia → Nitzschia inconspicua

All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Corethrophycidae → Corethrales → Corethraceae → Corethron → Corethron hystrix

Not Available

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

All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Ignavibacteriae → Ignavibacteria → unclassified Ignavibacteria → Ignavibacteria bacterium

All Organisms → cellular organisms → Eukaryota → Sar

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

All Organisms → cellular organisms → Eukaryota

All Organisms → cellular organisms → Bacteria

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

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

All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → unclassified Gemmatimonadetes → Gemmatimonadetes 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)	46.27	Long. (^o)	-123.946	Alt. (m)	N/A	Depth (m)	0
Location on Map

Zoom:	Powered by OpenStreetMap^©

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?
F000075	Metagenome / Metatranscriptome	2622	Y
F000344	Metagenome / Metatranscriptome	1257	Y
F001506	Metagenome / Metatranscriptome	681	Y
F001679	Metagenome / Metatranscriptome	653	Y
F002436	Metagenome / Metatranscriptome	559	Y
F004925	Metagenome / Metatranscriptome	418	Y
F006508	Metagenome / Metatranscriptome	371	Y
F008361	Metagenome / Metatranscriptome	334	Y
F017072	Metagenome / Metatranscriptome	243	Y
F018020	Metagenome / Metatranscriptome	237	Y

Family

Scaffold	Taxonomy	Length	IMG/M Link
Ga0210317_1013583	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	664	Open in IMG/M
Ga0210317_1013821	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Bacillariales → Bacillariaceae → Nitzschia → Nitzschia inconspicua	2031	Open in IMG/M
Ga0210317_1019474	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Corethrophycidae → Corethrales → Corethraceae → Corethron → Corethron hystrix	1176	Open in IMG/M
Ga0210317_1024913	Not Available	889	Open in IMG/M
Ga0210317_1029757	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris	665	Open in IMG/M
Ga0210317_1030561	Not Available	742	Open in IMG/M
Ga0210317_1056424	Not Available	795	Open in IMG/M
Ga0210317_1058411	Not Available	760	Open in IMG/M
Ga0210317_1061821	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Ignavibacteriae → Ignavibacteria → unclassified Ignavibacteria → Ignavibacteria bacterium	558	Open in IMG/M
Ga0210317_1063590	Not Available	913	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0210317_1010778	Ga0210317_10107781	F052976	VIGFGSNTTTLVLIYLPLLHNIQPIFTTQRGHINLIQCKKPIMSDGVYKCDACGRNNFKSQRGLSKHKLENKACRAHLYARFGSKADSKIAAAYLAVDTVHKPQACDAGSQNAMHYSDMSAGLGAKRAKFMSLPDKNFVSAWAMKAQSLLEQSQAELDSDSDAGMYDAENDVMLPPTGESSSARQNIMLDNFKDYAQRANDFVPLDANKFVTAITLLQTLRR
Ga0210317_1013583	Ga0210317_10135831	F042669	GEKVLLVRQVDDFALGCRQESTAKSVYATIGAKLTLHNEAEAPFEYLGLVDSFDGYDVLQTRDYIKLSAESYIRRLLKAHGWENPSPRESSNKPKPPLHESDVANLFNLAAGPVENTPEHKALEAEHGFGYRSVLGEILFAYVLCRPDIGYAVTTLAKFSTAPNALHYKSLKHLAIYLRQTQDWGIMYWRNVPVASLPEVPYFPMRFDDSLPVIPPPSHLR
Ga0210317_1013821	Ga0210317_10138213	F008361	VNDVEELTNIELSEAIKELEAATSAVENAETSKARLDASVELKKATARLEAVNYLS
Ga0210317_1019474	Ga0210317_10194741	F008361	VTVLVNDVEELDNIELSEATKELEKATLAVENAESSKARLDASVELKKATARLEAVNYLS
Ga0210317_1024913	Ga0210317_10249132	F021217	VQELKILEVATGSILTANRYEAHLDGGSQASTTNDKAVLWGFKGYTNKNPCQIRLICADGKTPIVPEGYGTVRIPADNAEGYVPIKCYYTPDIPNFILSPNSFKALLGKHYNRYKLECDDDKKNFRFSLNHKMRKSGSVLLRGTTRGGLCYTRPAIPPMPTTEGTAEMSLDMADKAAISMVEDHPKNSYRHEM
Ga0210317_1029757	Ga0210317_10297571	F022124	RSRPSPVKLMPATVDSDAVPKGIGYLHVPAKNAQGYLAVPTFYTPCLRTTVIDERDLVKAAKVSVKDIRSDSITKHKDAGTFTYHARHRMKSSKDVIVHGVLIDDKCYTGALIPPDLSPSDPKATPSTSSILAMESDPDFAEQCRKATILAVHGYHEAVETQLRDELTKLPMQFHTLPFHEYIQANTPVTTIKAATERLLWHQRLGHPSDYYLFHAHQHAD
Ga0210317_1030561	Ga0210317_10305611	F004925	AVERSQQVVSRIRPGDWGKVGSGWLTGLLWITAERPGKGGRIHQFLWQRSRAASNAKKELGDEER
Ga0210317_1030561	Ga0210317_10305612	F026908	VALANAPSKAVAVQRQVVKTRSNRRRVLTWFASRWRNHQSKRAEKPHSIIQGWKTLDGPATRPITPLAVENGVGKPAALR
Ga0210317_1056424	Ga0210317_10564242	F002436	MRSCIVGLFSGRDRRPVAVVVTTDGRRAHLPIETGPFDASLLSLLRSLFVGLESLLGLITGSRRENGGSRRDGGR
Ga0210317_1058411	Ga0210317_10584111	F045132	VLMHSSNHYPLGNCDSPGSETNPDYLTQFGTVSHRSSLPSSFFACTDGARTPPEELVNSASSVAYVSTRLHRGRVNQPDPTFPRSPGRILETAADLFSLTVSRL
Ga0210317_1061821	Ga0210317_10618211	F027192	FMFVLALLLVVGLSAALAQSEAEALVTASVESELILTNIDGDWGLFSPGLTYVVTPGGFKEPPGPGEGAGITVDPIGFEVEGNPNSEVLVSLVLPAAFVSDDENGTMPLSNWTYGWNFDDDPSVAFSAAGPVTGSAVTVIIGGGAVSGLFLGASVSVPTTAFAGGYTAQIIGSATYTGN
Ga0210317_1063590	Ga0210317_10635901	F061584	ARLAVSPSKVRVIDSASRGLVTEPRWTLMKIGRSTECCERRSCRRIRLPAPTMTSLFPGSLCGLTPTPSPVPLRVRVHPLVNFASPSEHEPFRSCPARCRAWRLPWGFFPHRGINTRSPLSIELPTARTIGPSSAFLTPSTVYSSAYLAGLFHPTTTSGIHLSGVISRYQASPPHRRPVPSCRSSTRSYHRVAPTAPDRADPPTGS
Ga0210317_1072490	Ga0210317_10724901	F006508	VALANASSKAMADQCQAVKTRTRNRRRVLTWFASRWRNHQPKRAEKP
Ga0210317_1078405	Ga0210317_10784051	F077370	NQPRIVNNKQSRNRRNNRKRILKNNSHQLAVPRPMSILGKTNDRAIDILVNIFAVNSLGTPFYSFAVSAGSPQVSANLTDLMILQFTEYSELAQIYGLVKLKKIQLGFTRSSNYIGGGTTILQNTPSIFLQASTIPYNVGTVSLQRAIAQSDNSIEIDLQTYDPKSYDILLPPHIVSNNRANNQTFAFGSQTWISTRLNNVQNFPDLFLNLGSLATPTFDPSTTSGNSVLI
Ga0210317_1078826	Ga0210317_10788261	F053640	EQSKRSGLKDVAESTAGIIPGDRGMDGDSWCCPPLQAAQVVERHISPVPLAGVVSGQSTHESGTERQGAIRNRVEPSQAHGKFRPVCRRSYHRGFWLLLRRPERSHGARRANPARRPRSPHERGAQGSRDGGERADLAKSVKPPRRGGVKNHVTPLQKRKQP
Ga0210317_1084393	Ga0210317_10843931	F057770	SGSVLLRGTTRGGLCYTRSAVPPMPMTEGTAEMSLDMADKAAILMVEDHPKNSYRNEMKLHALSAKAERLLWHQRLAHCGDEQLCRAHMFSDGIPEITRGKDSALDSCPVCLAANMKSRNRGDGETRTATEPGQGLSLDFSFAGQHSKNATDPKKMRINDYMGVHGETCY
Ga0210317_1091512	Ga0210317_10915121	F000075	MKFATVLLAAVAANKYDHMTDDELLAQLASNLSSAQMSEARGDGDAAVAKTAAIKNIQKSLTARILKRLDDGQPLVEVARKMKAIEGMQPQINDMERRLGIMQSVEPVLENAIKTLQKVVDVRGMGKK
Ga0210317_1093994	Ga0210317_10939941	F098390	NAFGTDYVPTIGTRIYKDFGTKGFFAGTVTSGPHTRTKDGDDVTTWKVQYADGDREDMTASEIAYWKAPTEEVHTSTTGAKSKKPKKTIATKPSGDRSEELEDAIPTLGRDASAPTHLRRSTRLQQHALETARMNFLDSNPYLPMDSIGMYEAATCRIHLCDDDPYEELLHNVDEVETLLQDPVVLAAIHRLLDPDADLDELWVNALQSEAISPEEHALPRFSRRALKRLPTWDLWHKNEIEQLDQMKALGMFGAPVKLPEGGILMRFHWQYRIKVNGKRRSRLCCDGSPRAAPEVHSTTNTYASCLEHPVFRLFIALCAA
Ga0210317_1094786	Ga0210317_10947861	F074319	INAINSHAITPEEQELIQLTRHKLKKLSTWPAWRQGEHKQLDQFALSGMYGEPQPRPKKAIVLQPHWLYTVKRDGTRRSRNCCDGSVCASPSLHKFALTYSSCVEQPVQRLFFALSAHMNYRVYSGDAQDAYAHSPPPEVPTYISIDD
Ga0210317_1098494	Ga0210317_10984941	F063220	VNTSTTNYAPFATVQEKIATHIQKSYDSGHDLAKSICTGTLIDLSTKQPIRKLADLNEPKAKRDLIQSGFDIEFSTRMGAHIKRENFLQSNLPKAFAYIMNDYCTDGLKTRLAALPDFTTSIQDDPLALLNAIKTCVHENAVTQYPPVTIQQHWSRLLQLK
Ga0210317_1105984	Ga0210317_11059841	F027192	MKRFMFVLALLLVVGLSTVLAQSEAVTLVTATVESELILTNLDADWGLFSPGQNYTITPGAFKEPPGPGEAAGDQVESAGFEVEGNPNSEVLISLVLPAAFTSEDENGTMPLSNWTYGWNFDDDPSVAFSAAGPVTGSAVSVIIGGGAITGLFLGADVSVPTTAYTGAYIAQIIGSATYTGN
Ga0210317_1106656	Ga0210317_11066562	F096335	LLLWLLLEFKFNSIVATIVVVAFVVAFDEPMKPFGSLVANLLPFSCSIGVLPSLPQEMQPVHFKT
Ga0210317_1109482	Ga0210317_11094821	F046726	PNFVPLSQISEKEKIDLIKTGFQLQAEGKIFLKKYYKSTQEYSLFQSKGYSSKYETIRKITLFKQFKF
Ga0210317_1115528	Ga0210317_11155286	F001506	MRIDVNVMKNFQLQKKRKSPTKSEGKPLQYPKPNEIISKTFQIRYDKKLSTTSKFILNSFQNKYIYYAIDDILYLFELNKTERNNLLAILYSPVLSLQNNFFVNFFDIWIREIYIDEVSKVNKFLNHDSQTSEQFSYIIIKFFYKTRVP
Ga0210317_1115659	Ga0210317_11156591	F078221	NIQTSKRPIAMHTNAGASTLNLEAEVPCFGKVYYDPNHIANIFGLAKMVDTADYVTFDSRIDDAFHVWTEGIETVFARTPSNLYAYKPSANYLEQIADYKNMLPPPDTSGPSVQATALIDDTFAFHFFMDSNPAPVAEPEFQFLLETVADNLKLYTKREQKDAKLAQITFHGTGRTPIPK
Ga0210317_1118454	Ga0210317_11184541	F031503	MDKQKLAELFKATAAFDSPEGVEAYKAFAQALTVPILQEIRDASIMRQLFAVERLQPGAQAVYPVADDFEVPVFVLPGLGYIAQNFIEGVGEEVYVPTFSISVSADWKVTYARDSRIDIPERAARNAARAIADFEEESGWRVIVPGGTTNFSGQGLLGARNAPIFQVPAGSTGEKFLSKELINLMMVGMKRVRRSLTDLYISPEDAADIREWTDTQVDPITRREIFTASG
Ga0210317_1121504	Ga0210317_11215041	F053305	MLKKSLSIVLTALFVFSFIAVGTVSAAEVKGEVVSVNAETGEMVIKDDAGEMKTLMADPKVVDLKMLKEGDMVSVESD
Ga0210317_1125985	Ga0210317_11259851	F018020	VSDTFGEGTTEKVSIILSGYSSLTLEINKVPIPDPVPPPNE
Ga0210317_1126465	Ga0210317_11264651	F060561	LNIDHIAGKKNPADILCKHWDLPSVWNTMKPLLFWNWKLMAPEAAGEEGSNIETKDVAELVSKLDAKYNVKVTAQGKGQKNDHVLIEGSDNGSISPVIQAGNQGSRPENTVRPKGKDTNPRTEQSKGIKK
Ga0210317_1138093	Ga0210317_11380932	F001679	VDQATKGTWGMSWRRKAMKGVEDCEKPGGVVKRALIPGYLN
Ga0210317_1156520	Ga0210317_11565201	F017072	MRMRDLAVGSDEKPLRTESSSPETFRFRMNRSHPEGEQLLLCISTVRAALAESNQIEAAQRKTPKGGQKERGHREEHGNSAGSVKNFQAPAMLKTTPLDCEIKCNLREKRRDPWFRANASPTAMAVPGRVVKTRTRDPQACLDLVRKPVAQPPAEASQEASLDNSAPQDAGRPCYEAENSACRGEWRREAGSPAEAGAPNVGVGKRERRTP
Ga0210317_1158564	Ga0210317_11585642	F000344	MRPKSAHAALSGVGEHPARESESAKWSAAGKERVANAH
Ga0210317_1172028	Ga0210317_11720281	F021307	MNRILYESRCRCKEEISITPRRKLSARSEGKPLQYPNEMMSKTFQIRYQKKLSSLARFILNSFRNKYIYYAIDDILYLMKSNPIE
Ga0210317_1172082	Ga0210317_11720821	F065810	YIYYAIDDILYLLKLNQIERDNLLAILYSPVLSLHNNFSVNFFDIWIREVSIDEISKVNKFLNKDSQPSEQFSYITIKLFYKTKVPVKKQESLW
Ga0210317_1173166	Ga0210317_11731661	F086800	ARLDRGIVARHRDPVTADVRIAVLRRDAGCVAARLDGLYHECQGGLTLDHVKDQPRMGVRAPSDMAHLVTLCRYHHIDTGWATAHRPALREYLRTIEGGHDDSSGDETPA
Ga0210317_1189274	Ga0210317_11892741	F024483	KDNLGLLRTFGCRLWVKTLAWQNRAKYIQDTKKGIFLGYRTNTLKNVVWYDPLTDRVKYGYHVRFDEGFNDLPLSKLPPNVVLMDRREERVPAETLTITIPPFTTSEHPFFHEDDVTVKVVCNSDLYGFELREDDCMKRVYISDFKRDGKGVKSRRSCNTICSTERATRRKYRGAYITAIDDEEIVTLEQAKEKLKELRSKKVDTFTMILAREPRPSKSMTRRAYDELELPDFDLDENLGEDYFATEGDLEGNSSM

Showing 1 to 36 of 36 entries

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300021852: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.23 (Metagenome Metatranscriptome)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences