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_10013284

Scaffold Ga0070717_10013284


Overview

Basic Information
Taxon OID3300006028 Open in IMG/M
Scaffold IDGa0070717_10013284 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)6304
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (81.82%)
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)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000381Metagenome / Metatranscriptome1210Y
F048211Metagenome148Y
F081653Metagenome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0070717_1001328410F081653GAGMKAPKLATPTLIVFAGLSFFSNVAAQTPSIEANGKSGSICVLPNSTEPPTRISPGGEYNPDTLTVRIDKGQSIRWPHKEPVLIDGLDLQANHLVVLTSDGKRIQSFRFKFSEDDDARLCVYFDGYQGVQLGNTKNALWCKVKTRACWR*
Ga0070717_1001328411F048211AGGAMQAAETNFLAELERVVRGERPTVDPRALLFVAAEVILEGRKADERDLQNIRSANAPSNNVIPFPTR*
Ga0070717_100132845F000381AGGAGMCPTCIASTAVMVAGAGSTGGILAACIGKFRKFFRVNHLSLFQKRKEK*
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