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 Ga0207700_10224824

Scaffold Ga0207700_10224824


Overview

Basic Information
Taxon OID3300025928 Open in IMG/M
Scaffold IDGa0207700_10224824 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L8-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1593
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F031594Metagenome182Y
F035917Metagenome171Y
F045919Metagenome152Y
F077695Metagenome117Y

Sequences

Protein IDFamilyRBSSequence
Ga0207700_102248242F045919N/AMTQPGQLYDWTCSACSLDWVKRATGLVTPSDIYSSRESTVYEIGYPNNINPTYGLMNADGSALQAVLEMYGQESSQSWLDFDTTYELAQGTAGMMSGAKWYHWVGIRGVDAGCIWVANSAPGYKGVYDHVSRDDFARLGGFSVVWLV
Ga0207700_102248243F077695GGAMTDYNVGPGVAQAIADNGDEARSDERYVIMDEGSKVSLTLGRDAQYWYYEADNRVNRLPF
Ga0207700_102248244F035917GGAGGMTDTLFQFKVVYVDPGDGLIVGMEPSGGAVGNAHKVAVIHDQAEYDVLMRTDPAYLSDDKAHILAAPDHT
Ga0207700_102248245F031594GGAGGMSVHPVTFNADGSIDVVYDEMGHSGTIPAAEVAWGTKMDGSHDHNFIILTCPDGCGATSTWPVGGGADATMGQQMFVNKVTSEGCACGQIQPTDADTLGESHIRLQVNRMDGPGRWALG

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