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_10007377

Scaffold Ga0307507_10007377


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10007377 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)16051
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (88.89%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta(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?
F024756Metagenome204Y
F032490Metagenome179Y
F067329Metagenome / Metatranscriptome125Y
F088008Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100073772F067329AGGVLGAGIADVLGIANITDIIDVADIVMDIADIADIVNIADIAVETGKCV
Ga0307507_100073773F024756GGAMLIYSIAYYIIVGEFASTNSLKYLILRLGFIMAAGEIKISNLYKTFLDLLL
Ga0307507_100073775F088008GGAGVLLYLIIKGLFRRNVITLNSLLVKIASFTIYNRANNSASMLDVITIPCLFAL
Ga0307507_100073778F032490N/AMSNLKNNPIPILKPRHQSVPGGFDLLTLALTPKGKPSGLKDYDDYKGDINNVLSFIDYITMDK
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