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_1000318

Scaffold Ga0208232_1000318


Overview

Basic Information
Taxon OID3300020527 Open in IMG/M
Scaffold IDGa0208232_1000318 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)10328
Total Scaffold Genes28 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)22 (78.57%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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?
F004132Metagenome / Metatranscriptome451Y
F014849Metagenome / Metatranscriptome259Y
F047494Metagenome149Y

Sequences

Protein IDFamilyRBSSequence
Ga0208232_100031813F014849GGAMLTNLDVIAIIIALLGCLTVMGLFWKQNIAQQKEIRRLQIALRTERLKNK
Ga0208232_10003182F004132AGGAMSEVMLQDQLTVSYNPNLLVTYKYIPELTPSHGVQLGEEPAATFMTDKVTEIEWQLHKSREYAARSSALAAERRGDIEWLEEHIVEWYDPNYSKEEVLKALAEHFAINPMKEISVYGTVTFSGTIQVPLDEVEDFDLSNVTIDAEISSYDYEADLTVDDVSLEEN
Ga0208232_100031820F047494AGGAMNSVINKVCKHTPNKNAISIVNDERFTFCENCEQNITSHYREDNDFMSYWTSWKVGK
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