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_10000344

Scaffold Ga0307512_10000344


Overview

Basic Information
Taxon OID3300030522 Open in IMG/M
Scaffold IDGa0307512_10000344 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)67655
Total Scaffold Genes82 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)47 (57.32%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
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?
F008227Metagenome336Y
F008531Metagenome332Y
F038958Metagenome164Y
F063295Metagenome / Metatranscriptome129Y
F088003Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0307512_1000034446F088003N/AVRTVREIEHHNVVSSVIFADEFPDNRPREWTKQALITLEEATEAYMVEVTADFHC
Ga0307512_1000034449F063295GGAVWLKQCPGRCYGALNWRLPWQLQRLFKIKLQNEDGAFVEYWLAMALTTIPENSGNSDPVLKFVQVRKAPAAVALQVFSVGNIVGCAHVIPEIATSTKTGDRRNERWIVNSHIDLATWNDVYN
Ga0307512_1000034456F038958N/AMTNVMASVFVDVHPSKAKLTLFRIANCFLIASTVSAYCLRQMLLRVVADSSTRSSRDDLFDCCSSRFDIAFHEICAEINPNMR
Ga0307512_1000034457F008531N/AMAHVIQLALGAFMSSLGVKGRTKSWEAHERDQQFGENESIDIGKSQRVRKEGNARINKVSAM
Ga0307512_1000034465F008227N/AMDKKPPLPGESGSNTGQLAGATTNTDDLGTQQERRHKLVHRDAANAATKIMTQDTHLEIVRKTGSRKNMKQYAVGCEYIHIEAKGSQLTV
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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