NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Sample 3300021292

3300021292: Metatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Oregon, United States ? S.493 (Metagenome Metatranscriptome)



Overview

Basic Information
IMG/M Taxon OID3300021292 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0114516 | Gp0225739 | Ga0210355
Sample NameMetatranscriptome of estuarine sediment microbial communities from the Columbia River estuary, Oregon, United States ? S.493 (Metagenome Metatranscriptome)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size52448269
Sequencing Scaffolds30
Novel Protein Genes30
Associated Families13

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales3
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila1
Not Available13
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Pseudanabaenales → Leptolyngbyaceae → Leptolyngbya3
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta4
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → unclassified Planctomycetota → Planctomycetota bacterium1
All Organisms → cellular organisms → Eukaryota → Sar1
All Organisms → cellular organisms → Eukaryota1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → unclassified Syntrophobacterales → Syntrophobacterales bacterium1

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: Oregon
CoordinatesLat. (o)46.178Long. (o)-123.853Alt. (m)N/ADepth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©


Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000344Metagenome / Metatranscriptome1257Y
F001506Metagenome / Metatranscriptome681Y
F002557Metagenome / Metatranscriptome548Y
F004323Metagenome / Metatranscriptome443Y
F008361Metagenome / Metatranscriptome334Y
F014854Metagenome / Metatranscriptome259Y
F020183Metagenome / Metatranscriptome225Y
F024806Metagenome / Metatranscriptome204Y
F025295Metagenome / Metatranscriptome202Y
F046726Metagenome / Metatranscriptome151Y
F054425Metagenome / Metatranscriptome140Y
F083433Metagenome / Metatranscriptome113Y
F105419Metagenome / Metatranscriptome100Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0210355_1000278All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales4353Open in IMG/M
Ga0210355_1001928All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila806Open in IMG/M
Ga0210355_1003376Not Available622Open in IMG/M
Ga0210355_1006421Not Available819Open in IMG/M
Ga0210355_1006454Not Available810Open in IMG/M
Ga0210355_1012106All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales2181Open in IMG/M
Ga0210355_1012370Not Available508Open in IMG/M
Ga0210355_1014181Not Available727Open in IMG/M
Ga0210355_1016981All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Pseudanabaenales → Leptolyngbyaceae → Leptolyngbya3745Open in IMG/M
Ga0210355_1021585All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta1996Open in IMG/M
Ga0210355_1028492All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → unclassified Planctomycetota → Planctomycetota bacterium529Open in IMG/M
Ga0210355_1042320Not Available683Open in IMG/M
Ga0210355_1045562All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Pseudanabaenales → Leptolyngbyaceae → Leptolyngbya4597Open in IMG/M
Ga0210355_1047444Not Available541Open in IMG/M
Ga0210355_1047993All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta1250Open in IMG/M
Ga0210355_1055740Not Available788Open in IMG/M
Ga0210355_1056169All Organisms → cellular organisms → Eukaryota → Sar699Open in IMG/M
Ga0210355_1057121Not Available914Open in IMG/M
Ga0210355_1059425All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta622Open in IMG/M
Ga0210355_1059865All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales641Open in IMG/M
Ga0210355_1061970Not Available855Open in IMG/M
Ga0210355_1072597All Organisms → cellular organisms → Eukaryota2531Open in IMG/M
Ga0210355_1073424All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria7837Open in IMG/M
Ga0210355_1073907All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria1239Open in IMG/M
Ga0210355_1088526Not Available1134Open in IMG/M
Ga0210355_1092118All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Pseudanabaenales → Leptolyngbyaceae → Leptolyngbya3359Open in IMG/M
Ga0210355_1096786Not Available713Open in IMG/M
Ga0210355_1101012All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta651Open in IMG/M
Ga0210355_1101179All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → unclassified Syntrophobacterales → Syntrophobacterales bacterium536Open in IMG/M
Ga0210355_1105456Not Available717Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0210355_1000278Ga0210355_10002784F020183MSLTINTKTFTADRYGQDAIGYVGPAHTLSLLDDVQLSRVAPKPTSVFSGVGRTSAKLTRTLTLTDALTPTGNAIVSISVSVPVGAASADVDDLLNDMGSFLSSATAKTHVKGLQISY
Ga0210355_1001928Ga0210355_10019281F000344MRPKHPHAAESGVGKHTARESERAQACATGKERVANAHS
Ga0210355_1003376Ga0210355_10033761F046726LGKIPEEEQIEIIKTGFQLQAEGKLSLKKYYESTDPNSLFQSKGYNIKYDTIRKNNLYQPLKE
Ga0210355_1006421Ga0210355_10064211F008361VNDVEELTNIELSEAIKELEQATAAVENAETGKARLDASVELKKATARLEAVNYLS
Ga0210355_1006454Ga0210355_10064542F000344MRPKSAHAALSGVGEHPARESESAKWSADGKERVANAHP
Ga0210355_1012106Ga0210355_10121062F020183MSLTINAKAFTADKYGQDLVGYIGPAHTLSLLDDVQLSRVAPKPTSVFSGVGRTSAKLTRTFTLTGALTTTGNAICQISCSVPVGAAGADVDALLNDFGSFLSSATFKTHVKGLQITF
Ga0210355_1012370Ga0210355_10123701F004323MPLDDLRRLEGMATPAVAIHSPVTRDYPSRALSDVFQAAALRLF
Ga0210355_1014181Ga0210355_10141811F025295IMVTGPGEDTELLRRREVLIPEKLKFLTRKSNLQKPI
Ga0210355_1016981Ga0210355_10169811F001506MNRILYENRCRCNEEFSLTKKRQSTTRSEGKPLQYPNYTESTSKTFQIKYDKKLSSLAKAILNSFQKKYIYYAIDDILYFLKGNSIEQENLLAILYSPILSLHNNFSINFFDIWIGEVYIEEISKVNKFLTKDSQTFTQFSYITIKLFYKT
Ga0210355_1021585Ga0210355_10215853F001506MNRILYEKRCKCNEEFSIIKKRKTKTRSEGKPLEYPQSSEMTSKTFQIKYQKNLSTTAKCILNSFHNKYIYYAIDDILYLLKSQPMERDNLLAVIYSPILSLQNNFSVNFFDIWIHEVYIDEISKNNKFLKNDLTTLKQFNYITIKFFYKTRVPVKKQESFW
Ga0210355_1028492Ga0210355_10284921F105419RAGTALMAKPTVVASREGESTNMRKTIAFCSLMLAAAITNGCISTTMYGCEITETLAPGASEGEVVMKHGAPDNILYLGNQYMNPQTGERGEVDKYLYEYRIGGGTTLLGKVFATDEFHNIGYLIEGGKVMGGGYVGEGKGTIILGNTPISLPVIGKFDMGGYFLHPKVRAGYGG
Ga0210355_1042320Ga0210355_10423201F002557VLMHSSNRYPLGNCDSSGSETNPDYLTQFGAASHRSWLPSSFFAFTGRARTPPEELVNSASAAK
Ga0210355_1045562Ga0210355_10455626F001506MNRILYKNRCRCNEEISITKKRNSSNRSEGKPLQYPKPNEITSKTFQITYEKKLSPIAKLVLNSFHNKYIYYAIDDILYSFQSNPHERDNLLAILYSPVLSLQNNFSINFFDIWIHEIYINEVSKINKFLNNDSLNFEQFSYITIKLLYKTRVPIKKQDSLW
Ga0210355_1047444Ga0210355_10474442F046726LGRISEQEKIEIIQRGFQLQAEGKISLKKYYESTDPNSLVQSKGYSIKYESIRRTKLYQQLKPSNN
Ga0210355_1047993Ga0210355_10479932F001506MNRILYENRCKCNEEFSIIKKRKIKTRSEGKPLQYPKSSEITSKTFQMKYQTRLSTTAKCLLNNFQNKYIYYAIDDILYLLKTKPVERDNLLAVLYSPILSLQNNFSVNFFDIWIRDVYIDEISKTNRFLKNDSTTLKEFNYITIKFFYKTRVPVKKQESLW
Ga0210355_1055740Ga0210355_10557401F054425RSLSHAGIGRLVGCQLPDAILHGKRSFRPRSRAVQNLAASGLSSEAFQLVSADGCATGLRTRSRHVYDFSPRLDRLTPGRPPLLAVRWPGVTGLAS
Ga0210355_1056169Ga0210355_10561691F046726KDEQTEISQRLFQLQAQGIISLKKYYQSTDPDSLFQSKGYFIKYESIRRTKLYQQLKPSN
Ga0210355_1057121Ga0210355_10571212F024806MATNSNFNFTNNTAVTLELPFSEHIEELRQRIFLLFWIILVLTCGAFIEVKS
Ga0210355_1059425Ga0210355_10594251F001506MNRLLYENRCKCNEEFSVMKKRKIKTRSEGKPLQYPKSSEIKSKTFQMKYQKNLSPTAKSILNSFQNKYIYYAIDDILYSLKSKPVERDNLLAVLYSPILSLQNNLSVNFFDIWISDIFIDEISKTNKFLKKDSITLKQFNSITIKFFYKTRVPVKKQESLW
Ga0210355_1059865Ga0210355_10598651F020183MSLTINAKTFTADRFGVDAVGYIGPAHTLSILDDVQLSRVAPKPTVVFSGVGRTSTKLTRTLTLTGSLTTSGNAIVQINVSVPVGAASADIDALLNDMGSFLSSASYKTHVKGLQISY
Ga0210355_1061970Ga0210355_10619702F025295VTGPGEAAELLKRREVLIPKKLKHLTRKSNLQKLN
Ga0210355_1072597Ga0210355_10725974F046726KDEQTEISQRLFQLQAQGIISLKKYYQSTDPDSLFQSKGYSIKYESIRRRPLFKQLKPSN
Ga0210355_1073424Ga0210355_10734242F001506MNRILYESRCRCKEEISITPKRKLSARSEGKPLQYPNEMMSKTFQIRYDKKLSSLARFILNSFRNKYIYYAIDDILYLMKSNPIERENLLALLYSPVLSLHNNLCINFFDIWIHEIYINETFKVNKFLENESQNLEQFTDITIKFLYKTRIPVKKLDSLW
Ga0210355_1073907Ga0210355_10739072F001506MNRILYESRCRCKEEISITPKRKLTARSEGKPLQYPNEMMSKTFQIKYEKKLSSLARFILTSFRNKYIYYAIDDILYLLKSNPVERESLLALLYSPVLSLHNNLCINFFDIWIHEVYINETSKVNKFLTTESQNLEQFTYITIKFLYKTRVPVKKPDSLW
Ga0210355_1088526Ga0210355_10885262F046726LGKISEQEKREIIQTGFRINQEGKISLKKYYQSKQEFILFQSKGYFIKYESIRRTKLYQQ
Ga0210355_1092118Ga0210355_10921181F001506MNRILYENRCKCNEEFSITKKRKSPTKSEGKPLQYPKPNEIISKTFQIRYDKKLSTTSKFILNSFQNKYIYYAIDDILYLFELNKTERNNLLAILYSPVLSLQNNFFVNFFDIWIREIYIDEVSKVNKFLNHDSQTSEQFSYIIIKFFYKTRVPVKKQESLW
Ga0210355_1096786Ga0210355_10967861F014854LRWTAVDERKSLVVSRMIPGNWGKVESGWLARPLLDRIARSGGGGRIHQFLWSRSHAVSYAKRNLAARGDKKPLRVGSSSSGRFRAWANRSYPEGKWLLLCIGTGRVTLADSINRLKPPNESH
Ga0210355_1101012Ga0210355_11010121F001506GKPFVYPNPNELTSKTFQIKYEKNLSSVAKFLLNSFQNKYLYYAIDDILYLLKSNPSERDNLLALLYSPVLSLQNNFSINFFDIWIQEIYITEVSKTNKFLQMTDSSFESFHSITIKLLYRTKIPMKQQESLW
Ga0210355_1101179Ga0210355_11011791F083433MKHRALFIAFMIVALAAFYSVPKANAEPLTIMAIVGVVAVLSASSVDMVATSHEDTKDQRAQLDEAANMHAKVEASGVTSGSEEAVAASN
Ga0210355_1105456Ga0210355_11054561F002557VLMHSSNHYPLGNCDSPGSETNPDYLTQFGAVSHRPSLPSSFFAFTDGARTPPEELVNSASSIACVSTRLRRGRVN
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.