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_10000006

Scaffold Ga0307514_10000006


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000006 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)600598
Total Scaffold Genes642 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)260 (40.50%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

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?
F004778Metagenome423Y
F019765Metagenome227Y
F026456Metagenome197Y
F036505Metagenome169Y
F079413Metagenome / Metatranscriptome115Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_10000006179F019765GAGMLQDMDNMEASCVCYVKVGTFTDLEQSKIALLTVNQSGIVKLTVQHKLIGSVSFM
Ga0307514_10000006335F079413GAGGVRELLFDNAYLLNVIDDKKSLFIWMDALDLVSNYFFFTTNSLGRRPTTSPFFQSLSPQKLALVAAVVHCTRAEYGTGKMVTVMFSQDEYQGKFCPCTVIRL
Ga0307514_10000006358F026456GAGMFDHMDSVMXPMAKKKTQWKENLFFSVMLARQKLLKHYAEVTPSTGMLLILAHILNPFWMLXSFRKWDRGMDINPEDETSYTIQYQEVFL
Ga0307514_10000006594F036505N/AMAHDIQHALGVFMFSLSQKGLTKPWEAHDGNQQFGENEYTDIGKSQRLQKESNASINKVFAMRSGLAKIIEKVHISRFFESPETNLHLAESACCIDCIDTWPSKQLHCGSKCQSNNHITINCRC
Ga0307514_10000006611F004778N/AMSFIAYSFLISNAYQGQYCRGQHTGVWLAVHWKEMLKCFELTNGRLLGITTDNASLNYSITHKLHTTLKLSGIEWPASGDHISSMEHVILLALGVLMSSLGVKGRTMSWTAHECDQQFGANERIDIGKSQRLRKEDNARINKVSTMRPSLGKII
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