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_10000298

Scaffold Ga0307507_10000298


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000298 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)99460
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (23.08%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Associated Families5

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
F002793Metagenome529Y
F006298Metagenome376Y
F056201Metagenome137Y
F066630Metagenome126Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100002981F002793N/AMDIIPLVNNLEILGIFKDKDKKEEDSITDALSIIL
Ga0307507_1000029818F000630GGAGMGVKGIEAVLGKRNPSRSIVNTMGGKYLRALRRPNKGGKYNSNTLKNRNNRTKRLALLGRCPSR
Ga0307507_1000029822F066630N/AMLSAAGTENYNTLLLTQKGLKAATRWLIGQNVLDQFWVAKEIAIESKGASNRRPLITLQE
Ga0307507_1000029825F006298N/AMERRLVIKNSNGLYAIYLTILSEVLIRRVVLNFYIYKELFGLINLTLKIFYAFILNQEALEVGYSNFIISNVSCTLIKLIICLLLLIKGVSS
Ga0307507_100002988F056201N/AMALSRSVKLRGPNTLTRKIPYGKMPRWIIVVGMPREYLSIVYRGKETN
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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