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 Ga0207664_10027319

Scaffold Ga0207664_10027319


Overview

Basic Information
Taxon OID3300025929 Open in IMG/M
Scaffold IDGa0207664_10027319 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L8-3 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4325
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (72.73%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Agricultural Soil → 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?
F001352Metagenome / Metatranscriptome717Y
F007429Metagenome / Metatranscriptome351Y

Sequences

Protein IDFamilyRBSSequence
Ga0207664_100273192F001352GAGGMSASRELSPDWVLSSFIHSSGKSRDEIMELADAARRLWPGVQAHARKEQPGKSFDEAVALATEVWEGVLQSVAKTLQRSNGKRAQIESLDAYLFGVFHHRFNRALKKDRLRREMLRSLPSNGDLGRLRQAHHSEVHRALEQSLQVQEAVRSMDEWTRKVWAARQYGYSWREIAERFNLTEPQAKLRFRYAIGKLRAFFGRGR
Ga0207664_100273194F007429AGGAVDAVSYPVAVNAIPMKKKQKPAKKSGPATKPKVQNERLKGWNEIASFLGQPVAVAQRWARSGMPVTREGRFMYASREELSRCLGREAGLDVPVHIATENTDLSADLKCALAHARAGKEDQKKKAKR
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