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 Ga0207665_10000014

Scaffold Ga0207665_10000014


Overview

Basic Information
Taxon OID3300025939 Open in IMG/M
Scaffold IDGa0207665_10000014 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L11-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)137803
Total Scaffold Genes125 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)99 (79.20%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan: Kellogg Biological Station
CoordinatesLat. (o)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000469Metagenome / Metatranscriptome1102Y
F013693Metagenome / Metatranscriptome269Y
F039313Metagenome / Metatranscriptome164Y
F075954Metagenome118Y
F094319Metagenome106N

Sequences

Protein IDFamilyRBSSequence
Ga0207665_10000014119F039313GGAGMWIAKGTLLALWLFGFGTMAWLYFAFYRHLPPNSAVDISIFAALTTRNPFWWIALVVCLVLGYGIARSWSGPLTLWIALAVTGLIPAGCLALFLVLAYKLKHISQGNP
Ga0207665_1000001439F094319AGGAGMPAAARSNRIHPLCYEHHSEMTVRELSSSDEATTYACQEPDCFVSYSRSDGYFLNTQNHFIIKRCPIPPHQYCEHDRHPMYLLEVQPDHPNFRLWRCPHCNVSRLGGQLT
Ga0207665_1000001493F013693AGGAGMRNKTGGFALDSKNKWINAAQALSYKNIAGGLADEMMGFIRPSEPRKCSPPFKMVIIDNRGTVVFKCNVSKDGKVRPLGLVRRVRNSHFPATALLTDSSLVTRTFLIERAA
Ga0207665_1000001496F075954AGGMATVTCDVCGGIFSQSYLPSHKRLAHREDSPTAARPSSEKEAIQKIVSLYESLSVKARRRAVRLLTAKDKEVQKN
Ga0207665_1000001498F000469GGAGMGYARVGLALARGIATAALVFFLTPQSKAQTVDVSGRYQCAQAKVRGKVIPCKAAPLILKNDGHFELRGWEGSYLVNGQWVELSDSLIKTRAKIEPGHKIVLRYYGKHGLVEMTYERRVAEMGKTALS
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