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_10000103

Scaffold Ga0307507_10000103


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000103 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)138962
Total Scaffold Genes53 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)30 (56.60%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (57.14%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi(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
F002555Metagenome548Y
F009949Metagenome310Y
F020829Metagenome221Y
F027375Metagenome194Y
F037003Metagenome168Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100001031F020829N/AVPLVPSKLITNIIFSIYGTPLTLGLYILIIYTGPLYVWIIITIISRLTACYNYKDRLIALLIIKHIYMAAFSLYRS
Ga0307507_100001033F009949AGGMGGKYLRALRGPNKGRKYNSNTLKDRNNRTKRLALLGRCPSG
Ga0307507_1000010334F000630GGAGMGVKGTEAILGKRNPSRSIVNAIGGKYLRALRRPNKGKKYNSNTLKNRNNRTKRLALLGRCPSR
Ga0307507_1000010335F037003GAGGMVEGEIKEYATKDETMEETVEVKHNYLSVPAIHYSWTTPSTERACKDIL
Ga0307507_1000010341F027375N/AMLLNIVPLLDTIPLSVLNKSYCFKNRSASSAAIIIIIIAKYPKNFVYLLIITRIVLATSSVLVLVGGKPIIKSIVNFNMGPCGIGSTNNLLYR
Ga0307507_1000010346F027375N/AMLLNIVPLLDMIPLGVLNKSHRSKNRSTSSAAVIVIIIAKYPKNFIYLLIITRIALATSSILILVGGKPIIKSIINSNMSPCGIGSTNNLLYKRCLDIYTLWHVLYLNI
Ga0307507_1000010352F002555AGTAGMLGIFKDEDKEEGDSITDALSTILRLLKEELAEAS
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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