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_10019338

Scaffold Ga0307510_10019338


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10019338 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)7990
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (64.29%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Agaricomycotina → Agaricomycetes(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?
F016489Metagenome246Y
F016903Metagenome243Y
F029295Metagenome188Y
F059500Metagenome133Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_100193382F059500AGGGGGMSVNFSHLASSTALDILSYKDFHSRPPVVRRDKLEGFGNSSMSSGFVVVKKGCYSPPKVVVCHDNKCRSVVPVGAVQ
Ga0307510_100193384F016489AGGGGGLILYATFDIWETTSKGPYLLGDNLGVMLLGSRKFVPSNQTLDLTGNGEWRGRSLIQDSCALRCASWAAFLASLIIESRCSRDRMSVFLVGW
Ga0307510_100193385F029295N/AMRIIPLSVPRVKMVEVANPELGSSWWIADMVVGGKEGRLRSQGFLYCLVDFQSPLVDPMHGDPQS
Ga0307510_100193389F016903N/AMPTPSNFGLDDLYRTPVQTIVELEDKVMEEGEVSDSNSSREEGQITDTRQSTPDSMNIGIPRVPSDWLQPDSP
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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