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_10001329

Scaffold Ga0307507_10001329


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10001329 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)55230
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (25.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
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?
F002793Metagenome529Y
F007022Metagenome359Y
F016500Metagenome246Y
F061416Metagenome131Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100013291F002793N/AMDIIPLVDDLEILRIFKDKDKEEGDSIMDALSIIL
Ga0307507_1000132911F016500N/AMDKLVVEVIEAKKGLDAFYSIRGFLVIYHLNLFRVNFNSFYANNKPKVLYSFYSKFAFLNINL
Ga0307507_1000132912F007022N/AMVICFNYRKNSYFTMSYLELKDIGNIKEIKEEEISNKLGKEEP
Ga0307507_100013294F061416N/AMQEGAKLAIPTDQVAYAGLFLIGRALEWFKSYLIEIQANGVTTTNPDI
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