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 Ga0070668_100179566

Scaffold Ga0070668_100179566


Overview

Basic Information
Taxon OID3300005347 Open in IMG/M
Scaffold IDGa0070668_100179566 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S4-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1728
Total Scaffold Genes2 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Switchgrass 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?
F012742Metagenome277Y
F060544Metagenome / Metatranscriptome132Y

Sequences

Protein IDFamilyRBSSequence
Ga0070668_1001795661F012742N/AVHSGPLGCLTKLGVKRAELVQKFVPRSRVGIFRNERTRSTPLDPKLTFWCVSYYLGAFGTVWLPYEFSAKRAELVQKFVKRIRIGIFRNERTRSTPLYPKLTFWCVLYYLGAFGTAWLPYETRCKTGRTCAKVRATKSHRTFRNERTRSATLDPIITFWCIRTIWVHSGLFGCLTKLDAKQAELVQKFVPRSYVGIFRNECTRSTPLDTKLTFWSVSYYLGAFGTVWLPYETRCKTGRTSAKVRATKWRRNFSQ*
Ga0070668_1001795662F060544AGGMGWIRCVRCEKIRRVFVARTFALVQPVLHLVSYGNQTVPNAPKYYKTHQNVCLGSNGVDRVRSLRKILTRLRGTNFCTSSARFAPSFVRQPSGPECTQIVRNAPKRQFRVQWGGSGAFVAINSDATSWHELLHKFGTFCIEFRKATK*
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