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_10000252

Scaffold Ga0307507_10000252


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000252 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)104816
Total Scaffold Genes52 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)32 (61.54%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

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
F002220Metagenome581Y
F021494Metagenome218Y
F024756Metagenome204Y
F064278Metagenome128Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000025211F064278N/AMPLANAYCNTLINPIMVTCFNCGKDSYFTISYPELKDMGNIKEIEKEEMSNKLGKEEP
Ga0307507_1000025216F002220AGGMHLLKSNSVIKLSLSFSFAIKFTFISLSSLRAKNWLSPKIIILLVCMLIIPNRVPIVITRKQGLNIKVVIKSFSL
Ga0307507_1000025222F021494GAGVSYVPTSLSKSEFVIASGSFPVFAGWLYAPYKLAMCIIFTALNLILNCPGLKLAIAVHRGLPTGRPLPCVLCVPYVPVQSGDIARRRF
Ga0307507_100002526F000247N/AMHITLNYKRTLYIEVVYTNYLAGSLNTFISKTLIPSSSVPFTYLFIDGKLYYNGGLSLNKSTDLTSTGL
Ga0307507_100002528F024756GGAMSIYSVAHCIMVEESAGTNSLKRLVPCLGSAIAAGETEISNLYKTFLDLLL
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