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_10000014

Scaffold Ga0307507_10000014


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000014 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)239450
Total Scaffold Genes118 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)77 (65.25%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Associated Families6

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?
F000247Metagenome1464Y
F004663Metagenome428Y
F014479Metagenome / Metatranscriptome262Y
F016500Metagenome246Y
F020829Metagenome221Y
F096350Metagenome104Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_10000014118F004663AGGAMGVLKESRLGNINKKGLLKNKLPKGDLRGAIAELLRVVSLAGGEPVLLLPSLDKPY
Ga0307507_1000001414F096350AGCAGGMCFFSARAFLISAIITAKIVYLGFLASYANRVALII
Ga0307507_1000001429F020829AGGAMPLVSSKLITNIIFPVYGTPLTLRLYILIIYTGPLYVWIIITIISKLTAYYNYKDRLIALLIIKHTYIAAFSLYRSWNP
Ga0307507_1000001438F016500N/AMDKLIVKIIEAKKGLDAFYYIRGFLITYRLSLFRVNFNSFYANNKPKVLYLFYSKFIFLNINL
Ga0307507_100000147F000247AGGLVQTNIINIALSYKRTPRIEVAYTNYLTGSLNIFIDKTLVPGSDVPFTYLSIDGKLYYSGGLSLNKSIDLTSTGLYRRCPY
Ga0307507_100000148F014479N/AVGLEGFWLLFSSVITIIEGVYVFLSVASNRRYARVFKLLVYLGIRAYLAVLPRGLYYRNLLLLEGPSCLSVTAFYKVFVEFPFRLLRDFKGGQ
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