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 Ga0307511_10024356

Scaffold Ga0307511_10024356


Overview

Basic Information
Taxon OID3300030521 Open in IMG/M
Scaffold IDGa0307511_10024356 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 13_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5611
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (57.14%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families2

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: Oregon
CoordinatesLat. (o)45.5468Long. (o)-122.376Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000814Metagenome880Y
F027698Metagenome193Y

Sequences

Protein IDFamilyRBSSequence
Ga0307511_100243563F000814N/AVKISASAVELGLEDDFWDTRDSVFVNGLSVRSSLFAHKMSASAVELGFLYKFLGPRVLVFDNVFEAVIVGVE
Ga0307511_100243564F000814AGTAGMKISASAVELGFEDDFWDNRDFVFINGLSVRSSLYERKISASSRTGLLG
Ga0307511_100243565F000814AGTAGVKISVSAVELGFEDNFWDCRDSVFVNGLSVRSSLCAQKMSASAVELGFLDDLLGPRVLVFINDF
Ga0307511_100243566F000814AGTAGVKISASTVELGLEDDFWDTRDSVFVNGLSVRSSLFAQKMSASTVEFGFLYKFLGPRVLVFDNVFEAVVVYVE
Ga0307511_100243567F027698AGCAGMYNEDFSVSSLCTMKISASAVELGFEDDFWDSRDFVFINGLSVRSSLYAQKISASSRTWLLG
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