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 3300021309

3300021309: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.266 (Metagenome Metatranscriptome)



Overview

Basic Information
IMG/M Taxon OID3300021309 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0114516 | Gp0225710 | Ga0210326
Sample NameMetatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Washington, United States ? S.266 (Metagenome Metatranscriptome)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size119042129
Sequencing Scaffolds20
Novel Protein Genes21
Associated Families15

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria4
Not Available5
All Organisms → cellular organisms → Bacteria → Terrabacteria group1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta3
All Organisms → cellular organisms → Bacteria4
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → Acidimicrobiales → unclassified Acidimicrobiales → Acidimicrobiales bacterium1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Synechococcales1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris1

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?
F001506Metagenome / Metatranscriptome681Y
F008361Metagenome / Metatranscriptome334Y
F012678Metagenome / Metatranscriptome278Y
F012917Metagenome / Metatranscriptome276Y
F014031Metagenome / Metatranscriptome266Y
F021307Metagenome / Metatranscriptome219Y
F025295Metagenome / Metatranscriptome202Y
F030135Metagenome / Metatranscriptome186Y
F037756Metagenome / Metatranscriptome167Y
F053305Metagenome / Metatranscriptome141Y
F054999Metagenome / Metatranscriptome139Y
F058634Metagenome / Metatranscriptome134Y
F065810Metagenome / Metatranscriptome127Y
F070130Metagenome / Metatranscriptome123Y
F075465Metagenome / Metatranscriptome119Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0210326_1021545All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria1674Open in IMG/M
Ga0210326_1031696Not Available683Open in IMG/M
Ga0210326_1067705All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria1635Open in IMG/M
Ga0210326_1069511All Organisms → cellular organisms → Bacteria → Terrabacteria group768Open in IMG/M
Ga0210326_1076360All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta658Open in IMG/M
Ga0210326_1097297Not Available1075Open in IMG/M
Ga0210326_1098265Not Available882Open in IMG/M
Ga0210326_1100949All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria1159Open in IMG/M
Ga0210326_1118112All Organisms → cellular organisms → Bacteria662Open in IMG/M
Ga0210326_1119441All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → Acidimicrobiales → unclassified Acidimicrobiales → Acidimicrobiales bacterium653Open in IMG/M
Ga0210326_1135977All Organisms → cellular organisms → Bacteria615Open in IMG/M
Ga0210326_1145301Not Available850Open in IMG/M
Ga0210326_1145980All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria1678Open in IMG/M
Ga0210326_1150510All Organisms → cellular organisms → Bacteria611Open in IMG/M
Ga0210326_1150929All Organisms → cellular organisms → Bacteria1018Open in IMG/M
Ga0210326_1154934Not Available809Open in IMG/M
Ga0210326_1185721All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta715Open in IMG/M
Ga0210326_1186523All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta661Open in IMG/M
Ga0210326_1224531All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Synechococcales2873Open in IMG/M
Ga0210326_1249490All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Naviculales → Naviculaceae → Fistulifera → Fistulifera solaris516Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0210326_1021545Ga0210326_10215451F001506MNRILYESRCRCKEEISITPRRKLSARSEGKPLQYPNEMMSKTFQIRYQKKLSSLARFILNSFRNKYIYYAIDDILYLMKSNPIERENLLALLYSPVLSLHNNLCINFFDIWIHEIYINETFKVNKFLENESQNLEQFTDITIKFLYKTRIPVKKL
Ga0210326_1031696Ga0210326_10316961F030135EFAKLSSTSDIWHSTFIGCQLPDAIPPGTEDFDLVAGPLD
Ga0210326_1067705Ga0210326_10677051F001506MNRILYDNRCRCNEEFSVTKKRKSTTRSEGKPLQYPKANEMTSQTFQIKYEKKLSSTAKAIFNSFHNKYIYYAIDDILYSLKGNLIERDSLLAILYSTILSLQNNFSVNFFDIWIREVYIQEISKMNPFLNQDSQTLTQFSYITIKLFYKTRVPVKKQE
Ga0210326_1069511Ga0210326_10695111F054999LTTIEDIRFPTPDEIEGFWAFDKMHAPRPLHPLSQDLVMATISRGFTQAQAEYDCPIVADSRPINHYFYMAFYPHPDESVVADRMTRYLGLVDKTVPLIGSRWANEWLPLIRERNEAERDVDYSAMSDNELFARYHEMTRWMEQMW
Ga0210326_1076360Ga0210326_10763601F001506ENRCKCNEEFSIIKKRKIKTRSEGKPLQYPKSSEITSKTFQIKYQKSLSTTAKCILNSFQNKYIYYAIDDILYLLKSKPIERDNLLAVLYSPILSLQNNFSVNFFDIWIREVYIDEISKNNKFLKNDSTTLKQFNYITIKFFYKTRLPVKKQESFW
Ga0210326_1097297Ga0210326_10972971F008361TKELEKATLAVENAETSKSRLDASVELKKATARLEAINYLS
Ga0210326_1098265Ga0210326_10982651F053305MLKKSLSIVLTALFVFSFIAVGTVSAAEVKGEVVSVNAETGEMVIKDDAGEMKSLMADPKAVDLKMLKEGDMVSVESDDAGAVQSIKASE
Ga0210326_1100949Ga0210326_11009493F065810EVTLKTFQIKYNKKLSTIAKLILNSFQNKYIYYAMDDILYSFRSNPMERDNLLAILYSPVLSLQNNLSINFFDIWIHEIHIHEVSKANRFLKHDFKNVKQLNYITIKLFYKTRVPSKKRDSLW
Ga0210326_1118112Ga0210326_11181121F014031MRRHRGRVGLMAVAIMGVLVSGASADIVTERSASVLVFPKVIANGTRDTLIQITNTSNSMVHAHCFYVNAAPTFRDLPPDPVLNPPLWQEIDFDIWLTKQQPTYWRVSTGRQDNYIEGIDDACSFDPRNL
Ga0210326_1119441Ga0210326_11194411F070130PDTPARQPDFFVGWWEIVFHIRDGEQTDVTGIIEHVDAAGNFTVFRDGERIGGGHHADFIVDPDGFTNVPAAADPDLQIARELAIYRFSGGVLEVCKASEHAGRPTSFASPRGSGWTHVAIRRISDDDPRVRTQC
Ga0210326_1135977Ga0210326_11359771F014031MRRHRGRVGLMAATALLGLMVSGASAQLTTERSASILVFPKVIANGTRDTIIQITNTSNSMVHAHCFYVNAALTRPELPPDPVLNPPLWQEIDFDIWLTKQQPTHWVVSRGRAVNPQDPPCDRLTDTTACPDAGIDPGRVPPVPDDFVGELKCVEVDASGAPISGNHLKGEASIITQNVCGPQTQCNDGSVCMSDA
Ga0210326_1145301Ga0210326_11453011F025295IMVTNSGEDTELLQRSKVLIPEKPTFKTRKSNKRKQI
Ga0210326_1145980Ga0210326_11459804F021307MNRILYENRCKCNEEFSIIKKRKIKTRSEGKPLQYPKSSEITSKTFQMKYQTSLSTTAKCLLNNFQNKYIYYAIDDILYLLKAKPVERDNLLAVLYSPILSLQNNFSVNFFDI
Ga0210326_1150510Ga0210326_11505101F058634MSFTRFASSAALTCAALAVALAGCSSDQPEPGVGNLDMAITLATPPAGPNEQIDTVNVSLYCDGIDPVLGVPRPPMSNPETFSINVSTSQGPEPKNTIGLLEKQGLPAGNCYLSFTAASNTGNTQCTGEITVAIVTNQTADSEVVLACIHTPRYGGLRTDGTFNQCAEYRQILVTPTTQS
Ga0210326_1150929Ga0210326_11509293F012917FPLNDCGYYDKYESFTDINRTWDKKRHLKRKRWSQE
Ga0210326_1154934Ga0210326_11549341F037756GDRQALFPVPTFGAHLAAAAGFPTPFSAANGVSGLVAGPSNLLQG
Ga0210326_1185721Ga0210326_11857211F001506MNRILYENRCRCNEEFSITKKRKSTTRSEGKPLQYPKSNEIKSQTFEIKYDKELSSTAKVILNSFQNKYIYYAIDDILYLLKENPIERDSLLAILYSPVLSLQNNFSINFFDIWIREVYIEKMSKVNKFLTNDSQTLEQFSY
Ga0210326_1186523Ga0210326_11865231F001506MNRILYENRCKCNEELAITKKRKSISRSEGKPLQYPKSSEITSKTFHIKYDKKLSATAKSILNSFQNKYIYYAMDDILYLFKLNQIERENLLAILYSPVLSLHNNFSVNFFDIWIREIYINEISKVNKFLNNDSQPSEQFSYITIKLFYKTKV
Ga0210326_1224531Ga0210326_12245311F012678MLNQHSLEEIGDIHRLLDDIKKEYEEGIKPILVKNSPKLFKNPHSVPKLKKIQINRGLGLAAQN
Ga0210326_1235936Ga0210326_12359361F075465LLTKHRGQVFSLIEGQCTQLLLDKMKQDPDWATASTSFDPLQLHSLIEKTVLAQTEDQYPFATIYEQEVALYSFKQDQLTNPQWYERFNTRIDVSTAIGVTREHKVLLEFVAQQEHSLTFANLNAADKITVRNDAEERYLAYILLKQSGAQHATLKTDLKNDFTTGDNKYPKTRQQTLHLLDMYSKAVVNKPTHSEGSSFVQKGGKKNAGSANRGSKKTYDKEYWSDKECYSCGKKGHPASHCTKP
Ga0210326_1249490Ga0210326_12494901F075465TQLLHDKLKQDSEWMKISTSYNPLTLIRLIEKTVLVQTEDQYPFATVYDQEHAFYSFRQELMTNAMWYEKFNTRVDVGEAIGITRQHTVLLEFVAQEVHTKAFTALTAAEQQVIRLDAEERYQSYVFLRQSGAQHSHLKQSLQNDFTTGDNHYPKNRQQTLHLLDKFSKTV
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