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_10004945

Scaffold Ga0307507_10004945


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10004945 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)22687
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (66.67%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
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?
F003457Metagenome485Y
F020829Metagenome221Y
F021494Metagenome218Y
F056213Metagenome137Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100049452F003457GGTGGVCFFSTKAFLILAIVIVKIMCSGFLVSYTSRVAPIMWISKVLSGLRLFLVSYTVSYLVLGLVLNTKLVLDLGLGSLSILFIVEY
Ga0307507_100049453F056213N/AVGLGIRRSILLYRLLIMFVQALRAPGRSIPIRKVFSLGLRDLIRLLTSVESF
Ga0307507_100049457F020829GGTGGMSSNRIDFMPLVSSKLIANIIFSIYRTLLTLGLYTLIIYTGLLYVWIVITIISRLTACYNYKDRLIALLIIKHIYIAAFSLYRS
Ga0307507_100049458F021494AGGVSYVPTSASISESVIISSSSPSLTSWLYALYRLAANIRFAVFSLILNYPGFKLAVAVYRGLSIGRLLPYIPYDPYVPI
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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