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_10000001

Scaffold Ga0307514_10000001


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000001 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)814396
Total Scaffold Genes845 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)314 (37.16%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Eukaryota(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?
F004891Metagenome / Metatranscriptome419Y
F008531Metagenome332Y
F038958Metagenome164Y
F063295Metagenome / Metatranscriptome129Y
F088003Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_10000001323F004891GGAMIARNSGLEMGVGKMXRPLREVGVLALPDAGLDTMPHIESVDKNAVGAGVLQLHXPGMAVGVYIDRR
Ga0307514_10000001533F038958N/AMFADVFPSKAKLTSFLDGNYFLIASTVSHYSFRQMLLSMLPDGSTNSLFNALYDRRSSRFDFVFHGI
Ga0307514_10000001670F088003N/AMLFVRTVRITEHHEVVCSRIFTDEFPDMYPREWTKLSVITLEEAKEAYMWEVIAESHC
Ga0307514_10000001730F008531AGGMSSLGVKGHTKSWEANERDQQFGENESMDIGRSQRLRKVGNARINKLSAMRPGLAKIINKVCIS
Ga0307514_10000001838F063295N/AMQCPGRCYGALNGRFQWQLQRLFKINVLNRHGAFVEYWSALAHTTIPENLGNLDPVLKFVQVRKSLAAIALKVFSMGNMVGYLHVIPKLATSSKTGDEQNQR
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