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 Ga0307515_10006544

Scaffold Ga0307515_10006544


Overview

Basic Information
Taxon OID3300028794 Open in IMG/M
Scaffold IDGa0307515_10006544 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 17_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)23293
Total Scaffold Genes39 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)29 (74.36%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
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)46.6992Long. (o)-120.899Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004891Metagenome / Metatranscriptome419Y
F038018Metagenome / Metatranscriptome166Y
F063295Metagenome / Metatranscriptome129Y
F081959Metagenome113Y

Sequences

Protein IDFamilyRBSSequence
Ga0307515_1000654418F063295AGGMCRCTGSQSWHGGDQRNDWVGVKQRPGRCYGVLTGRLPWQLQPLYKIKLPYEDGAFIEYWLALVLTTIPENSGNLDPVSKIVNGSKALAAVALQDLGVANFVSCAHVIPEIATSSMSGEGRNKQWIVNSHIDLAMWNDVYN
Ga0307515_100065442F081959GGAMSTGMRGMIVMIRTRIRRKKQGKLMMDQRRMWRTEGIVLESVMIRLYISDL
Ga0307515_1000654437F038018GGAGGVSQTREHLFRHCSRWKDQQKTLWKTVGQATGRKAGRCQHVQISELFTIEEGDQAVMDFLAATEVRKFPPK
Ga0307515_100065447F004891AGTAGMIARASGFRITVGRFSRPLRRVGVLAIPDAGLDTTRRVESVCVVPLGAGVLRLLVPGVAVGVIIDSLSVADWVEITRCVISAT
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