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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Scaffold Ga0307509_10043394

Scaffold Ga0307509_10043394


Overview

Basic Information
Taxon OID3300031507 Open in IMG/M
Scaffold IDGa0307509_10043394 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 10_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4866
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (81.82%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Agaricomycotina → Agaricomycetes(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Roots → Unclassified → Unclassified → Ectomycorrhiza → Soil And Ectomycorrhiza Microbial Communities From Populus Trichocarpa Stands In Riparian Zones In The Pacific Northwest, United States

Source Dataset Sampling Location
Location NameUSA: Washington
CoordinatesLat. (o)46.0356Long. (o)-122.86Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F016903Metagenome243Y
F028665Metagenome190Y
F028977Metagenome189Y
F044236Metagenome154Y
F059500Metagenome133Y

Sequences

Protein IDFamilyRBSSequence
Ga0307509_1004339410F059500AGGGGGMSVDFGHLASSAAFNVLSYKDFHSGPPVVGCDKLEGFGNPGMSSGFVVVKKGCYFPPKVIVCHDNKCGAVVPVSAV
Ga0307509_100433942F016903GGAGMSRPMSPEEQPTPPDSPKSSAMTTPSNFGLDDLYQTPVQTIVELEDEVIKEGETTDSDSSIEEGQIADTRQSTSDSMDIGIPRVPSDWLQPDSL
Ga0307509_100433945F028977GAGMEVVEVEGGSAVFLPKDSGDGDVLESVIEVDPFVIESDHVFDALFTLLLERCGGGGLGE
Ga0307509_100433946F028665GGAMHSSRFFLSDVEEVVWGNKSSVGVGFGLIAFNFFCGSEGVWVGDVEWNVFRFLGSAATVASSANGDNVEWSCRSGLVSRGVGSKWKSFIVDVGSEDRIFVINWDHDGFVVNVNGVEGFSWSPSSPVVRDVEVSLSDECSKEVEIVVVGVHANENNPVISAKGEDGRGCES
Ga0307509_100433949F044236N/AMKIDAFEQSVSVIVRIVSYPPESGSLVMKSIATVSKGRAFSAGVIGNIGG
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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