NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0307515_10001916

Scaffold Ga0307515_10001916


Overview

Basic Information
Taxon OID3300028794 Open in IMG/M
Scaffold IDGa0307515_10001916 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)46111
Total Scaffold Genes57 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)41 (71.93%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
Not Available(Source: )

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
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004891Metagenome / Metatranscriptome419Y
F008227Metagenome336Y
F019765Metagenome227Y
F059517Metagenome133Y

Sequences

Protein IDFamilyRBSSequence
Ga0307515_1000191654F008227GGALAGVTSNTEILGTQQECRHKFVHRDAANAATNHMTQDAHLKIVCKTGSRRNKKQHAVGCEYIHIDAIGCQLTV
Ga0307515_1000191655F019765GAGMLQVMDNMEASCVFDVKVGTFTHLEQSKIFLRTVKKSGIVTLTVQHDLIVSVIFI
Ga0307515_100019168F059517GGAGMLMQRPMLDIIRSNQYQVPAQVDMVKSHFIQSTRDNIAGLYDLHRFQSDAEYLELIDSLVADNKYLVPVAQHVEGDECGPNPTQRESKAAN
Ga0307515_100019169F004891GGAGMGVGRYSRLLRGVQVLALPNVGLDTTQHVESVSEVPPGAGVLKLLVPSMVVGVCIDRHCVADREEVTH
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.