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_10000430

Scaffold Ga0307507_10000430


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000430 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)87577
Total Scaffold Genes19 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (63.16%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi(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
F004318Metagenome / Metatranscriptome443Y
F027375Metagenome194Y
F032105Metagenome180Y
F041034Metagenome160Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000043011F004318N/AVLSKLRLSLVSYTVSYLGLGLVLSIELVLDLGLGSLSILFIVEYQFF
Ga0307507_1000043012F041034AGGVDINRNLILVEFGRILILVELGRLFRYKVDISGNFRLVDSGGFFKSWFRV
Ga0307507_1000043013F000247AGGVQTNAMHIVLSYKHTPRIEVARTNYFASSLNTFVDITPVPSSGVPFAYLSIGRKLYYNGGLSLNKSIDLTSTGL
Ga0307507_1000043015F032105GGAGVIIIAKVPQPKLVRIIDILKGNVLSLAVIVDKILLKTIKVIVSNCLIYMPKVARLFFKPLLLPLAEPY
Ga0307507_100004308F027375AGGVLILHHIFNKRQNEDQNALLNTVPLSDTIPLSVPNRSYRFKNRSASSATIIVIKIAKYPENFIYLLIITRIVLATSLVLILVGGKPVIKSIINSNMGPYGIGSTNNLLYRRYLGICTLWHVLYLNT
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