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 Ga0070713_100160659

Scaffold Ga0070713_100160659


Overview

Basic Information
Taxon OID3300005436 Open in IMG/M
Scaffold IDGa0070713_100160659 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L8-2 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2005
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes(Source: UniRef50)

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?
F004122Metagenome / Metatranscriptome452Y
F006481Metagenome / Metatranscriptome372Y

Sequences

Protein IDFamilyRBSSequence
Ga0070713_1001606592F004122N/AMTEKGLSDSGRRSAELRHEWQSFLGLLPVLDLRPMDPVLYQRCLTAVWLSRNSAIGRTDLQQAAGLTFQTETVAFDLLLAQLVREDILEPIISSPFHFQIQRRNWTHPESAYAADDRRSLSAIVRKEQAARFRMLGLLDARILNPRLPEKRVQQVREERDELGQIYEATWLELENAIGSQSAEAIRKSVEETREVGVVQLELPLEQKRTFDLEGEAICNQ*
Ga0070713_1001606593F006481AGGVVDTIIAAPASSEAQLPSRVLEIRPEESKVVCVGADGREFVLSRLVGSNVRIGDEVFAPASTGTATADTEVYIRKPSLRRADVYQVTAGYAALPKLDKREEPFVRVQAEGQLGINTIHIPCPVIRDYFFAANRRAPWPSQPTFYYVLRLPQDVTYKELRLAYRLRRMELEKQNASNAELATIERAYNMLADPDIRGVYDTLIKDSAIPVPFPYSGFGSLLVQGERSSESGVFFANRILAFMPDRRCRTVPVPLRKLDYFEDYAILRDRHRKLEVLIDHQ

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