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 Ga0307512_10000858

Scaffold Ga0307512_10000858


Overview

Basic Information
Taxon OID3300030522 Open in IMG/M
Scaffold IDGa0307512_10000858 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 14_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)44721
Total Scaffold Genes58 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (29.31%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → Pezizomycetes → Pezizales(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)45.6996Long. (o)-121.669Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004778Metagenome423Y
F008227Metagenome336Y
F019765Metagenome227Y
F048690Metagenome147Y
F088003Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0307512_1000085815F004778N/AVLDHFELTDSRLHGITTGNASSNYSMTRELQSTLEASGIEWLALSNHIPCMALVIQLALGAFMSSLGVKGRARFWDAHERDQQCEEIEYIDIGKSQRLRKEGNARINKVSAMKPGLAKIIEKVLIS
Ga0307512_1000085856F088003N/AMEHHDVVSSGMFADKFPDKHPLVWTKQALITLEEGMEANMVEVTAEFHC
Ga0307512_1000085857F008227N/AMDTLPPRPGESGLNTGRWAGSTTNMYIFGTQQERSNMLVHRDATNSATKHMTQDAHLKIVCRAGSRKSRRPHAMGCEHIHIEARGNHLAV
Ga0307512_1000085858F048690GAGMLQVMDDMEASCIIHVKVGMFTHLEQSKIYLLTVNNSAIVTLTIQHDMIDIVIFMQYPGDSMRYISADILSL
Ga0307512_100008587F008227AGGMDRQPPPPGESRSNTSRLVGATSNTQILDTQQERTHKLVHRDADDAATKHMTQDAHLKFVRKTGRRRNSKLHAVECEYIHIDAIGGQLTV
Ga0307512_100008588F019765GAGMLQVMDNIEASCIFYVNVGTLSHLEQSTIFFLSVKKSGLVTLTLQQELIVNIIYM
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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