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 Ga0070708_100027026

Scaffold Ga0070708_100027026


Overview

Basic Information
Taxon OID3300005445 Open in IMG/M
Scaffold IDGa0070708_100027026 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4919
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
Not Available(Source: )

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?
F016727Metagenome / Metatranscriptome245Y
F022492Metagenome / Metatranscriptome214N
F101809Metagenome / Metatranscriptome102Y

Sequences

Protein IDFamilyRBSSequence
Ga0070708_1000270261F022492GGAGMAGGLIEGAGLRGVMRLTWVEDHLAHVLDHCETDEPSGAWTGLACQDHGLALGGDVDNATLRRLSAHGEIADLIWEPRGELVAEHGQLLQAAIQAGQDGKPKTGEQLWQQVQAIWSVAWSANYAALKFLQDA
Ga0070708_1000270262F101809GGAMMTEHLGTRPGTVTKHVSDACADLKKALPELAIADDPGGDTAGGEEAP*
Ga0070708_1000270263F016727AGGAGGMSPKDDAGTEREQVPPSAVYRQLDDHLGPEEAPYDAESGLQRLRGWMGDEEPPDEARPQVEPVSETERLRLAGMKLDAVERLAQKRISNARLALGAVVLVSVLAGLGLLFRLSYVPARVAMPVLVAIGAIDGAMTLAVVALYRTAMRGLHDDLRLAFGEQAGRREKPDGAGQEATRPAARRRGGRPLVVRSGGGTYPPLLKFLATIAFLGFAAACVVAYARDSLVPFTITSIVLAGLFLISVLPVVIPAIWAGEAPRRAAQAILYVMLGGQPVSYGDITARHAETAELPLADDRKAGSTTASPRE*

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