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 Ga0070675_100000020

Scaffold Ga0070675_100000020


Overview

Basic Information
Taxon OID3300005354 Open in IMG/M
Scaffold IDGa0070675_100000020 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS M4-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)168778
Total Scaffold Genes165 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)90 (54.55%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → Unclassified → 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?
F002338Metagenome / Metatranscriptome569Y
F051251Metagenome / Metatranscriptome144Y

Sequences

Protein IDFamilyRBSSequence
Ga0070675_10000002043F051251AGGAGGMTETNTTKLTPEGVIAQLRTVRSQIEDVAPLSQEQRKVLKQRLRLHSKSVVEASINVIGVLDNVSQAIGQPLDEVRQLQDDVLRWDAAAEEARAFLKGIEGANLVRRQRLTLIATQAYTIGSQLAKDPAKAALVPHVEEVKRLKGVSRRKKAAPAPQPPVPTTAPVKA*
Ga0070675_10000002059F002338N/AMQELKAEKPPESPEGTDPVVRLMNRLAEEGFTTEQGPEWWDEYGEVIYRRDEKLPLTKGETVFIFTRIDDLNERILRQTSESVVHTYSAKNPLQIALSVLQSTTVYHCLVVAGDQPRSEALDTYIVRRGGATFIPVVIIPAINEVVYPNVEDKVGAIRPRVEYLQYLLGERRETVNMHRPTVQAMWVSAAVVVVLLFAIVFSFVT*
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