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 Ga0307514_10000124

Scaffold Ga0307514_10000124


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000124 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 16_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)215839
Total Scaffold Genes246 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)159 (64.63%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina(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)46.6253Long. (o)-120.532Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F019765Metagenome227Y
F051592Metagenome143Y
F080709Metagenome / Metatranscriptome114Y
F081959Metagenome113Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_10000124111F051592GAGVQLHEVENPLLEVVKHVDLHCMKEGGLREVTHDTGNMSKHVESSVNMARLVFSIGCLVVGIAEHSI
Ga0307514_10000124124F081959AGGAMTMAISARMVTMWIWIRRKQRCKPMMDQYRMWRTEGIVLPSVKLGQYISDM
Ga0307514_1000012416F019765GGAGMVQDKENMEASCIFYVKVSTFDQLEQNKIFLLTVNKTGIVRLTIQHDLIVSISFM
Ga0307514_1000012452F080709N/AMVELSTRKRDIRGDGGNHHEKLELEKISCTSQLTIPDTAGTIPDPAGKNTNTGSSKPNQASCTPDFS

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