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 Ga0307507_10000425

Scaffold Ga0307507_10000425


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000425 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 7_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)87729
Total Scaffold Genes47 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)34 (72.34%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (33.33%)
Associated Families6

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: Oregon
CoordinatesLat. (o)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000630Metagenome971Y
F004318Metagenome / Metatranscriptome443Y
F014479Metagenome / Metatranscriptome262Y
F020829Metagenome221Y
F021494Metagenome218Y
F081096Metagenome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100004251F081096N/AMHIYRGGYRGNTGQLDKDLIVRDIGQLIKGGDISLVSRREESRLSGVGPSVSMAPLLQDTVGLL
Ga0307507_100004252F021494AGGVSCVPTSASISKSIIVSGSSPSLTGQLCALYRSAANVRFAAFSLILNCPGLKLTIAVYRGLPIGRSLPYVPCDPYVPIRSGNIARRHF
Ga0307507_100004253F020829N/AVPSVSSKLITNIIFSICGTPLTLGLYTLIIYTGPLYIWIVITAISGLTACYNYKDRLIALLIIKYTHIAAFGSYRSWNP
Ga0307507_100004254F000630N/AMLERRIGVKGIEANLGKRNPSHSIINAIRGKYLRAPRRPNKGRKYNSNTLKNRDNRTKRLALLSRCSSR
Ga0307507_1000042547F014479GAGGLLFSSVATIIKGFYIFLSIASNRRCTRVFKLLVHLGIRAYLAVLPRGLYYYNFLLLEGPSCLSAMAFYKVFIEFPFRLSRDFKGEQ
Ga0307507_100004256F004318N/AVLSELGLSLVFYIVSYLGLSLVLGIELVLNLGLGSLSILFIVEYQFF
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
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