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 Ga0307507_10000088

Scaffold Ga0307507_10000088


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000088 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 7_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)143612
Total Scaffold Genes59 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)39 (66.10%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina(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)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005943Metagenome385Y
F007161Metagenome356Y
F027375Metagenome194Y
F032105Metagenome180Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000008816F027375GGAVLILYRIFNKRQNEDQNTLLDTVPLLDTIPLSVLNRSHRSKNRSASSTAVIVIKIVKYPKNFIYLLTITRIALATSPVLILVGGKPIIKSIVNSNMGPYRIGSTNNLLYR
Ga0307507_1000008818F032105GGAMDVMMTAKAPQLKPVRMMDILKGNVLSLTIMADKILLKTIKVTVGDCLIYMPKVIKLFFKPLPLPLIEPY
Ga0307507_1000008831F007161AGCAGVPYYLINRYKLDRGIVLKLGLKVPLGIPYSLTKEVEYFGFFRKEIVIVNAELSLYLNPLILKGRVYPIR
Ga0307507_1000008843F005943AGGMSRNVGNGYKAYVFGESIRRYAIDCKGRGRKEVIYPRVADISCTRGVRESMGFSYGGPCSRVP
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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