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 Ga0208088_1000238

Scaffold Ga0208088_1000238


Overview

Basic Information
Taxon OID3300020505 Open in IMG/M
Scaffold IDGa0208088_1000238 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 02APR2012 deep hole epilimnion (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)9206
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (9.52%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (16.67%)
Associated Families6

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Unclassified → 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?
F005814Metagenome389Y
F006463Metagenome / Metatranscriptome372N
F007860Metagenome / Metatranscriptome343Y
F009004Metagenome / Metatranscriptome324Y
F009958Metagenome / Metatranscriptome310Y
F034772Metagenome / Metatranscriptome174Y

Sequences

Protein IDFamilyRBSSequence
Ga0208088_10002381F005814N/AMELELLSSRINLNHTCLKLQVSIEDIKTKHPKRTDLISSMEQSLHEIKKAMLVYHTLEKEFRATRQINFDLQRINLEQMQEIQNFK
Ga0208088_100023810F034772N/AMKNLIDYFTPVAEEHKSFLRHFLSTLTAFIVLGGMFYCLMYLKAL
Ga0208088_100023811F009004N/AMKTEFNKVIDFLETQQQEDKQNTNQLHLIIQTLATFLDDEQLQEVENLFNQFKK
Ga0208088_100023817F007860AGGAGMKSNYLATAYFIAGFLTSFSLICQGTEPYINLAGVTLFFYLTFSLTEALEEL
Ga0208088_10002388F006463N/AMTSGTIYEQMDWWQRQWRGSFDLGLYLEICRIKKNEQIKYKEMKRFKVTFKTWAYVGAPVKLETRIVEAYDFQHVKNLIQKNDDIIIEIKQIEK
Ga0208088_10002389F009958N/AMENRNLEFWNKGWELTYEFTGWTYSIAGTWEFNDWDEVSEYAFIELDVEISQKWETETDDNLQPHVLGVRILEDVRLEMQEAINSDLAHYNFWEWKTSNDDSNYTFYYEL
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