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 Ga0208223_1000282

Scaffold Ga0208223_1000282


Overview

Basic Information
Taxon OID3300020519 Open in IMG/M
Scaffold IDGa0208223_1000282 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 07OCT2009 deep hole epilimnion ns (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)13189
Total Scaffold Genes28 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (14.29%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa

Source Dataset Sampling Location
Location NameLake Mendota, Madison, Wisconsin, USA
CoordinatesLat. (o)43.098333Long. (o)-89.405278Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001808Metagenome / Metatranscriptome631Y
F006463Metagenome / Metatranscriptome372N
F009004Metagenome / Metatranscriptome324Y
F009958Metagenome / Metatranscriptome310Y
F014573Metagenome / Metatranscriptome262N

Sequences

Protein IDFamilyRBSSequence
Ga0208223_10002821F001808N/AYSCSAQYHLNKAIKKGFKCEETGDTIRITTLDSIPVIVNDTIVWEKFISTKDTVIQYKNVYVPKTRIQLKREYKIKVKTIYKDKVVEKAEARAEGKKNQPKGNLNLLFVGVGIGLLLSYLWKYAKKSLI
Ga0208223_100028223F014573N/AMTIYHFDMYIQDEQLRTEVKNILRLKTRNSIVKEIQDKGNKFHFFQLTNFLEGKDVSLSTLKKIDYFVNK
Ga0208223_10002824F009004AGGLVTHTNLKTMKTEFNKVIDFLETQQQENKLNTNQLHLIIQTLCTFLDYEQLQEVENLFNQFKK
Ga0208223_10002826F009958N/AMKNRNLEFWNKGWELTYEFTGWTYSIAGTWEFNDYDEVSEYAFIELDVEVSEKWLTETDDNLQPHVLGVRILEDLRLEMQEAINSDLVHYNFWEWKASNDESNYTFYHEL
Ga0208223_10002827F006463N/AMTSGTIYDQLDWWQRQWRGTFDLGLYLEICRIKKNEQIKFKEMKRFKATFKTWAYVGAPIKLETRIVEAYDFQHVKNLIQKNDDIIIEIKQIEQ
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