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 Ga0070707_100000248

Scaffold Ga0070707_100000248


Overview

Basic Information
Taxon OID3300005468 Open in IMG/M
Scaffold IDGa0070707_100000248 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-2 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)53897
Total Scaffold Genes47 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)33 (70.21%)
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)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001077Metagenome / Metatranscriptome785Y
F002916Metagenome / Metatranscriptome521Y
F050621Metagenome / Metatranscriptome145Y

Sequences

Protein IDFamilyRBSSequence
Ga0070707_10000024816F050621GAGGMFQILFTGLLTLQFVVVALHDLVDIPGWTHGAQVQSAVGRRKLWLATLVNAVFPGVAVAFAFYFWSRPKPAFVANYWVIYCAVTLASAIAMWYVPYLFGTTAERKREYSRMYAGTWQVLPPRGENPRPNLLHVCFHALFVINFFLALVLRFRST*
Ga0070707_10000024823F002916GGAMVQYLPGWTVQCINPDCRARGQWLRVDATKPDFCSNCGAPLHNVPPPLGPRLRLRPRPLGTYRPPGRPR*
Ga0070707_10000024834F001077AGGAMDLTIYQLSWKILPGLRGLSCSDFRATATSAPNNDQGVAVELASESERDTLLRQLEEHFGPQRFSNNAAAFEAVKTYVLEWATARARN*
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