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 Ga0208232_1000544

Scaffold Ga0208232_1000544


Overview

Basic Information
Taxon OID3300020527 Open in IMG/M
Scaffold IDGa0208232_1000544 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 24AUG2012 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)7533
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (80.00%)
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 → 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?
F003080Metagenome / Metatranscriptome508Y
F026214Metagenome / Metatranscriptome198Y
F027425Metagenome / Metatranscriptome194Y
F071233Metagenome / Metatranscriptome122Y

Sequences

Protein IDFamilyRBSSequence
Ga0208232_100054410F071233GGAGMNPQIQEILNKSTDDIMGVPVVDQERFARLLIEECAKICFELRFTTEGPAEGASYQRTLCGTAIKENFGLQGKGPITAKNVK
Ga0208232_100054415F027425N/AITVGGGNTALPYVGPNSSNPMTGMMRIHNTELEVFNGSNWQTISSSYATVSLDQDVLDIIQWARKKRQEENDWYKLASSNEAVRIALEQLEQAKTRLELTAILSREYETTN
Ga0208232_10005442F003080GAGGMNTAKDITDNLIYRAKNLQEFVVERDWELIPAGVVKFNIQHTVGESAKIFVHAMTQDEAERQVDDWFGEGVE
Ga0208232_10005448F026214AGGAMKNYKDYRYFENRPDVVKVWEDLEAYHDWCRLQLCDFNPADLYRRDSQNYGSYLASKRPRRPYQGNRPNFQKRG
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