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 Ga0307515_10001606

Scaffold Ga0307515_10001606


Overview

Basic Information
Taxon OID3300028794 Open in IMG/M
Scaffold IDGa0307515_10001606 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 17_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)50358
Total Scaffold Genes70 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)50 (71.43%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya(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: Washington
CoordinatesLat. (o)46.6992Long. (o)-120.899Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006048Metagenome382Y
F008227Metagenome336Y
F048690Metagenome147Y
F063295Metagenome / Metatranscriptome129Y
F081952Metagenome / Metatranscriptome113Y

Sequences

Protein IDFamilyRBSSequence
Ga0307515_1000160613F063295GGAVWVKQHPWRCYVALNGRLLWQLQRLFKIKLLNEDGAFVEDLLALPLTSIPENSGNLDPVSKFVQRRKAPAAVALQVLSVGNIVGCAHVIPEIATSSETGHG
Ga0307515_1000160626F006048AGGAGMLKQWPTLDITCSNGFQVRAHVDKVKSHFIQSARDNIAELYDLHRFESNAERLEFMDSLLADNKYLFPLAERVEGGVRGPNPTQGVSKAANEWPASTLLSGRSNPAVYLHLILSSCQ
Ga0307515_100016065F081952N/AMVNAPKKNFLPLLAGRYGKSTKRSTQRRHHANEGKSGLEAERVQALGALRSLRSKMKLAAEK
Ga0307515_100016066F048690N/AMLQVMDNMEASCVFYVKVGTFTHLEQSKISLLTVNESGIVMLTVQHDMIVSVIFMQSLGDYLRQTSADVLSLGQDPINI
Ga0307515_100016068F008227N/AMDTQPHPPGESGSNTCRLAGATINTDILGTQQERGHKLVYRDAANAATKHIIQDAHLKIVHMTGSRKNKKQHAVRCEYIHIKAKGGQLTV
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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