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 Ga0070717_10001699

Scaffold Ga0070717_10001699


Overview

Basic Information
Taxon OID3300006028 Open in IMG/M
Scaffold IDGa0070717_10001699 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L11-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)15325
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (100.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F034740Metagenome174Y
F047937Metagenome / Metatranscriptome149Y

Sequences

Protein IDFamilyRBSSequence
Ga0070717_100016995F034740AGGAGMSYKPVLIALLSVTLLGAMQTTPSGSSQASSSQAGAANAAENAQIRQLGNNRGNDAQAQRDDIRKMRALLAQMQSNLAFVDNTQSPLKHQFQLDIDMWNALLNQMERRSYPNSR*
Ga0070717_100016998F047937GAGGLCKTLIGKGNRGRDKIMKRYHRACAFIGVAAFLVYAFALQPASAQGQPQKAQAKAPIQTFVGVISDGQCAVKGSHKEVMAKAKVNTAANCVKGCARRYGYVLYVPSTKKIYKLSDQERPAELAAKRVRIKGALDKSTQTIYVSSIEPVL*
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