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 Ga0208053_1000620

Scaffold Ga0208053_1000620


Overview

Basic Information
Taxon OID3300020575 Open in IMG/M
Scaffold IDGa0208053_1000620 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 20MAY2010 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)8526
Total Scaffold Genes25 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)23 (92.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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?
F003422Metagenome / Metatranscriptome487Y
F023344Metagenome / Metatranscriptome210Y

Sequences

Protein IDFamilyRBSSequence
Ga0208053_10006201F023344AGGCGGMEAFTDTVGEHILGAIQVDIEQALFEDWNQSNLDEGEAYAEWRFMQFAPDNLKQSYNEYYGYIEGDE
Ga0208053_10006207F003422GGAMSVGSCIILYMTNELVSSVYTFVCDPDECDCLIQLTSSDGFGFPSGVTELTCPCGRKTTLVSVEHATITPLTQTKEEKMNGMIDEPLSDIEKYNPDQLVTYKVISGYSDPTYATDKVRNIEWELHNSRTNSKAVSSLNNKIGLVKDIISEAYADSEDQETLQAIAEALEIELIREIEWSASIEVSGTISVNLLEDTNFDLDSEIEDALYADSHNGNIEVNDQEICNIRENC
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