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 Ga0207684_10000071

Scaffold Ga0207684_10000071


Overview

Basic Information
Taxon OID3300025910 Open in IMG/M
Scaffold IDGa0207684_10000071 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)185783
Total Scaffold Genes195 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)136 (69.74%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(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)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006360Metagenome / Metatranscriptome375Y
F035924Metagenome / Metatranscriptome171Y
F067244Metagenome / Metatranscriptome126Y

Sequences

Protein IDFamilyRBSSequence
Ga0207684_10000071180F067244AGGAGGMCLTCGCMLPHERHGNPDHLVIEDLEKSARLDKVNLDKAVDTLIKTVEVAKKEPGHQHR
Ga0207684_1000007176F035924AGGAGGMARHLHHWLEMVEAVLIIGILLAIAWLSWQALTQAYSPVFNLLNKF
Ga0207684_1000007183F006360AGAAGGMQHIDEYGCLTQRSQLDRLRDLADGSTRERIRTLEQSEQLSTTVFVIDAAGTASTWDLDHRSLARSALEGPAQLLLEPVAALDNLVPTQAIMRILRDTGASAVAVITPISSSAAALQLADLDHEQSLTAQIDRQPEAEPALSQWDFGKVVWTVRLRHVLRAAKAGAFDDQPHGPSRPAATPATPARPADGRRNLRREMREQLQRQAAPAPSWLQ
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