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_10004352

Scaffold Ga0307515_10004352


Overview

Basic Information
Taxon OID3300028794 Open in IMG/M
Scaffold IDGa0307515_10004352 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)29362
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (50.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
Not Available(Source: )

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?
F000247Metagenome1464Y
F002555Metagenome548Y
F003457Metagenome485Y
F003725Metagenome471Y

Sequences

Protein IDFamilyRBSSequence
Ga0307515_100043522F003457AGTAGGVCFFSAKAFLISAIVTAKIVYLGFLASCASGVALIIRISRVLSSLGLSIVSYLGLGLVLDIELVLDLGLGSLRILFIVKY
Ga0307515_100043523F002555N/AMDITPLINNLEIFRIFKDEDKEEGDSITDALSTILQLLGKELEEASWLI
Ga0307515_100043524F003725N/AMETLINLYIDLIETAKVVQQRIKKYYNAKRSKGLDLKEGDKV
Ga0307515_100043528F000247AGGVHTYAIYIALNCKRTPYTEVARTSYLASSLNISIGKTLVPSSSVPFTHPSTGRKPYYNGGLSLNRSINLTSTNL
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