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 Ga0307515_10010703

Scaffold Ga0307515_10010703


Overview

Basic Information
Taxon OID3300028794 Open in IMG/M
Scaffold IDGa0307515_10010703 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 17_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)17529
Total Scaffold Genes25 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (48.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
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: Washington
CoordinatesLat. (o)46.6992Long. (o)-120.899Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004778Metagenome423Y
F019765Metagenome227Y
F026456Metagenome197Y
F036505Metagenome169Y
F089625Metagenome / Metatranscriptome108Y

Sequences

Protein IDFamilyRBSSequence
Ga0307515_100107031F019765GAGMLQVMDNMEVSCVFYVKVSTFTHLEQSKIALLTVNESGIMTLTIQHDIIVSVSFM
Ga0307515_1001070312F089625N/AMTQLGFATGLSLNRAESQMVQSNQDENNYGWQQLLNGQCIKMSVNGASTICGLVSTVIH
Ga0307515_1001070323F036505N/AMAHVIQLSLGAFMSSLGVKGNTKSWEAHERDQQFGENESTDIGKSQRLRKEGNARINKLSAMRPGLAKIIEKVCISTYYESAETDLHIAENAC
Ga0307515_1001070324F026456N/ALAKKKTQWKEDLFFTVKCVPQKLSKYYTEVTPTTGMLLVTAHILDPIRKLWSFRKRDKGMDIIPEDETSYTTQYQEAFLKYVENK
Ga0307515_100107039F004778N/AVLDRFELTDGRLLGITTHNAFSNYSMTRELQSTLQASGIEWPALRNHIPCMAHVIQLALGAFMSSLGVKGRTKSWEAHERDQQFGENESIDIGKSQRLRKEGNARINKVLAMRPGLAKIIEKVRIS
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