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 Ga0307510_10000017

Scaffold Ga0307510_10000017


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10000017 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 12_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)195521
Total Scaffold Genes168 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)137 (81.55%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(Source: IMG/M)

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)45.654Long. (o)-122.839Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000445Metagenome / Metatranscriptome1131Y
F002655Metagenome / Metatranscriptome539Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_10000017133F002655AGGAGMKIENLSKDLDTTAMTEVHGGIALTGQVVPTSVQDNEMLQGFNVASGAPVAIGNDGEQSNYSRQDTVSPVGSLFLGSDFLRRA
Ga0307510_10000017134F002655GGAGMKIENLSKDLDTVSMTEVRGGTALTGQVVPTSVQSNALEQAFNIKANGPVAIANDADQSNDSDQDTFSPVGSIFVPYLRSLVR
Ga0307510_100000174F000445GGAMNPDVRGWRMALTPDALMNPSRTTLPDVLSVLDSSGYGLLQLPGQGDHSLLLAVIADQVEEYSHHGYAVVAIGLQGEPGQGLHWRRLAPLLRHRGIALPPRHIIKADVDAAAETHRLATWLNNYDLPVEEQRRWR
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