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_10000017

Scaffold Ga0307514_10000017


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000017 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)444373
Total Scaffold Genes466 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)183 (39.27%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta(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
F046750Metagenome150Y
F062316Metagenome130Y
F088003Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_100000172F062316N/AMQKYDSNCTSRTNWFDLAGTSCLVFEPEPLNAFESIEAILRESFEEEPLEAYFWELSAVPSPWNTYWTDAAREGGGLDMNDSVFGQHWTKYQGAHSWFPCDPEEPCECEGHNCTGTHSTIGHAAAAATTAKSLGIPLIVIVPPTPTRSELDAYNWHW
Ga0307514_10000017275F088003N/AMEHYHVVSSGIFADEFPDKYPREWTKQALITLEEATEAYMVEVLAEFHC
Ga0307514_10000017277F019765GAGMLQVMDNMEASGIFYVKVGMFTHLEQSKTSLLTVNKSGIDKLSVQHDLIGSISFM
Ga0307514_10000017328F046750N/AMNLTQSVSNSLIPFWQKISIFFLKQSVWKVMYVSQIRRRESXKWLTNVQCPLYFLAEAIPWFIYIKFCHQVNNRSKYADGLYNSMIEDKDGHIPSPLIMFTCTALSHAPLEWQQNTSVHPKAYKSKLKLDKPNRSNIFNYENGGGKNPLCCTGMGIKLVTLPGISDKDTYMMNTWNTVLESYQQTVYENTLATVKRQIQHAENPIPAVFIRVEAMCVDNSILLHNLTFEVGIEEPAIGCTDPNIPIHNNFI
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