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 Ga0307510_10019838

Scaffold Ga0307510_10019838


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10019838 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 12_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7873
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (46.15%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Associated Families6

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: Oregon
CoordinatesLat. (o)45.654Long. (o)-122.839Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F016489Metagenome246Y
F016903Metagenome243Y
F028665Metagenome190Y
F028977Metagenome189Y
F029295Metagenome188Y
F044236Metagenome154Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_100198381F016903N/AMLKRSPTPSTLSTPLSFGLGDLYRTPVQAIIELEDEQMEEGETTDSDSSMEKGQIEDTRQSTPDSMDIGIPRVPSDWLQPDSP
Ga0307510_100198385F028977GAGVEMVEIEGGGTVFLSEDSGNGDVLESTIEVGPFVVELDHVFDAFFMLPLERCGGGGLGE
Ga0307510_100198386F028665GGAMHSSCFLLSDVEEVVWGNKSSVGVGFRLIIFDFFCGSEGVWVGNVEWNVFRFLGSAATVASSANRDDVEWSCRSGLVTRGVGCEWESLIVDVSSEDRFIIVDWDHDGLVINVNGVEGFSWSPSGPVVHDVEMSMSDKCSEEVEIIVVGVHANENNSVVGTKGKDGRGGES
Ga0307510_100198387F029295N/AMRIIPSSVPRVKMVEVANPELGSSWWIEDMVDREVRLRFQGFLYCLVDFQSPLVDPKRGDPRS
Ga0307510_100198388F016489AGGGGGLILYATLDIWETTSKGLYLLGDNLGVMLLGSCRFVPSNQTLDLTGNGEWRGCSLIQDSCALRCASWAAFLASSIAESRCSRDGISVFLVGW
Ga0307510_100198389F044236N/AMKIDAFEQSVSVIVRIVSYPPESGSLVMKSIATVSKGQAFSVGVMGKIGG
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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