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 Ga0307508_10236388

Scaffold Ga0307508_10236388


Overview

Basic Information
Taxon OID3300031616 Open in IMG/M
Scaffold IDGa0307508_10236388 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 9_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1425
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
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)45.0822Long. (o)-123.061Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000814Metagenome880Y
F016902Metagenome243Y

Sequences

Protein IDFamilyRBSSequence
Ga0307508_102363881F000814AGTAGLNISASAVELGLEDDFWDRRDSAFIKGLSVKSSLFAQKMSASVVELGFLDDFLGPGVLVFVNGF
Ga0307508_102363882F016902GAGGLGHRGSVFINSLSVRSSLFAQKMSASAVELGLLDYFLGQRVLVFVNGF
Ga0307508_102363883F000814AGTAGLKSSASAVELGVEDEFWDTRASVFINGVSVRSSLFAQKMSASAVEIGFLDDFLGQMVLVFVNGF
Ga0307508_102363884F000814AGTAGLKISTSAVELGFEDDFWDNKDSVFIKGLPVMSSLFAQKMSASAVELGFLDYFLCPGVLVFVNGL
Ga0307508_102363885F000814N/ALKISASVVELVFEDDFWDNRDSVFIKGLSVRSSLFAQKMSASAVELGFLDDFLGPGVLVFVNGF
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