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 Ga0307509_10064420

Scaffold Ga0307509_10064420


Overview

Basic Information
Taxon OID3300031507 Open in IMG/M
Scaffold IDGa0307509_10064420 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 10_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3855
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (100.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Agaricomycotina → Agaricomycetes(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)46.0356Long. (o)-122.86Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F016489Metagenome246Y
F016903Metagenome243Y
F029295Metagenome188Y
F075486Metagenome118Y

Sequences

Protein IDFamilyRBSSequence
Ga0307509_1006442010F016903AGGAMAMPLKHERSDPETERSMSPKEQPTPPDSPKSTALSTPSSFGLADLYRTPVQTIIEVEDELMEEGETTDSDSSMEEGQIADTRQSTPDSMDIGIPRVPSDWLQPSSP
Ga0307509_100644202F075486GAGGVPVVLLSATEYSKVLFKGLVGSFAGSICLRVISCADVLADV
Ga0307509_100644203F016489AGGGGGLYATLDIWETTLKGPYLLGDNLGVMLLGSHRFVPSNQTLDLTGNGEWCGHSLIQDSCALRCASWAAFLASSIAESRCSRDGMSVFLVG
Ga0307509_100644204F029295GGAMTPSSVPKVKMVEVANPELGSSWWTEDMMVGDKECRLRFQGFLYCLVDFQSPLVDPKHGDPRS
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
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