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 Ga0244775_10070702

Scaffold Ga0244775_10070702


Overview

Basic Information
Taxon OID3300024346 Open in IMG/M
Scaffold IDGa0244775_10070702 Open in IMG/M
Source Dataset NameWhole water sample coassembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2992
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (100.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001562Metagenome / Metatranscriptome670Y
F003690Metagenome / Metatranscriptome473Y
F009143Metagenome / Metatranscriptome322Y
F024319Metagenome / Metatranscriptome206Y
F029434Metagenome / Metatranscriptome188Y

Sequences

Protein IDFamilyRBSSequence
Ga0244775_100707022F001562GAGGMKSQFEKDLEIKESFIDLLNDVYPTVKIGYSTFTPAEILECCDPIAFSIGLIEHQDYLAEMENE
Ga0244775_100707023F029434AGGAGMKKYTFGVWLDIDAEDEDMAVSLFDSVVKNTFVSDSYCFEWKEVADEIAI
Ga0244775_100707026F003690GGAMTISGFELVVSNEYGIEFDSFLGAIYLPWHTIIITALALIAYKIYKIKRGK
Ga0244775_100707027F009143GGAGMMTKWDTIQADVADAYIYLEEEEAYNKALAEGLEIGATEYDEDELSKSLTLDWND
Ga0244775_100707029F024319AGGMTNRIWESLNDYQLESDAKRLGYVACSAGCGRVTAWSLCVMCGGNYATHNLVGKGSN
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