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_10005282

Scaffold Ga0307507_10005282


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10005282 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)21405
Total Scaffold Genes29 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (58.62%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

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: Oregon
CoordinatesLat. (o)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F071804Metagenome121Y
F075405Metagenome119Y
F087969Metagenome109Y
F096295Metagenome104Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100052821F071804GGAVDVGYYPRQVGEKGELSKNDRREHKIRRAVRTRLGREGSEKTIPEVEPQERTILNLRSQLDHAAQSIVAKPNDFKQHDKEKEKLLQTYNRVKQRMPLSGGMLWQGGV
Ga0307507_100052822F096295N/AMEACATSLLGEPADDGLVRVALLATRWASLSGVPESRSCQTTGRGAEDDLLIVTCIHSGLSWVPPVESLDCVVCIVQVFCGVPDFIVFW
Ga0307507_1000528226F087969N/AMDAKGEARIRLKNMKQAKQSVTEYWNEFRLLASEAELDDSNGGELLLDGMIAELQNAWGASSDEYEDLETLAQWAIRKESNLAMVRHNAGSPSTKNIQQETITPRNLDGTSRPRNNGNQNYDNPMELDVMRKRPGLNSSSEEVQKRKQEQLYLECGRPGHLAGSCPKKAGPKPFNAQASSWQPAKKTAPWHTRTHIREI
Ga0307507_1000528229F075405GGTGGMNTHGVEFSIAGCVREMVRDPNLLPRGCPYIGVLPSTLALRNSSPRVTRLMTHS
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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