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_10000634

Scaffold Ga0307507_10000634


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000634 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)76015
Total Scaffold Genes24 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (62.50%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota(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?
F000247Metagenome1464Y
F037003Metagenome168Y
F050242Metagenome145Y
F088008Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000063413F050242GGAMRLYVPTSTAKDIGHFSLGSREVVRINFKLILQLKLLIIKYRVSSVCKQ
Ga0307507_1000063418F088008GAGVLLHLIIKGLFRRNVIALNSLLVKIASFTVYNRANNSASVLDVITIPCLFAL
Ga0307507_1000063420F000247N/AMHVVLSYKRTPRMEVARTNCLASSLNIFVDITLVPSSSVPFTYLSVDGKLYYNSGLSLNKSIDLTSTGL
Ga0307507_1000063421F037003AGGMVEGKIKEYATKDKIIEETVEVKRNYLSVPAMHYLWTTPSTERAYKDIL
Ga0307507_1000063422F088008GGAGVLLHLIIKGLFKCNVITLNSLLVKIASFTIYNRANNSASMLNVITIPCLFAL

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