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 Ga0307510_10016369

Scaffold Ga0307510_10016369


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10016369 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 12_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8751
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (30.77%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Malpighiales → Salicaceae → Saliceae → Populus → Populus deltoides(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)45.654Long. (o)-122.839Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002024Metagenome603Y
F008284Metagenome335Y
F017256Metagenome241Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_100163696F002024N/AMQIIKHKSCNNVVKLLIIPTYAITYSKVNSKLTITIQQIIQSLYKYKQ
Ga0307510_100163698F008284N/AMVEQTYHKVLSTVVNELLRPLLAVLTPHVRLHKQLHRAWLTSNRRSL
Ga0307510_100163699F017256N/AMINFFFIFRRPIIVGXGRDMRTILXPIRNSIRIYGWRLDRLVDLIKSGFTGSPTLRPRTCGRPVMFQPLGASNQYRASNLRSSWPXSNTRLSSPKNTTNYQWSMHNTKRIMNSFAKWSXTWHHRVVIHVRLILFGRITTNLLLLLLF

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