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_10000688

Scaffold Ga0307507_10000688


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000688 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)73935
Total Scaffold Genes25 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (40.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
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: Oregon
CoordinatesLat. (o)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000746Metagenome908Y
F006298Metagenome376Y
F029000Metagenome189Y
F082146Metagenome113Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000068815F082146N/AMFYVSLLQPLKDNSITYKVLPLPPIIINNGNSLYFINLINNIQ
Ga0307507_1000068816F029000N/AMDLINAILVAKCFIKYIFKLYRLPNLIVSNYRSQFILNF
Ga0307507_1000068819F006298N/AMERRLVIKNSNSLYTIYLTILSEVLVRRVVLNFYIYKKLFGLVNFTLKIFFAFILNQEALEVGCSNFLVFNILCALAKLIIYLLLFIKGVSS
Ga0307507_1000068820F006298N/AMERRLVIKNSNSLCTIYLTILSKVLVGRVVLNFYIYKKLFSLISLTLKILYAFILNQEALEVGYSNLIISNVSYTLAKLIIYLLSLIKRMPS
Ga0307507_1000068821F000746GGAMVAIVGNIAEGIINDYKAKVEVLVEVHSKVITRRSATFIRN
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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