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 Ga0255224_1037284

Scaffold Ga0255224_1037284


Overview

Basic Information
Taxon OID3300024483 Open in IMG/M
Scaffold IDGa0255224_1037284 Open in IMG/M
Source Dataset NameMetatranscriptome of freshwater microbial communities from Columbia River, Oregon, United States - Colum_Cont_RepB_8h (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)990
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)46.1812Long. (o)-123.1834Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000441Metagenome / Metatranscriptome1136Y
F001019Metagenome / Metatranscriptome804Y
F001781Metagenome / Metatranscriptome635Y
F034924Metagenome / Metatranscriptome173Y

Sequences

Protein IDFamilyRBSSequence
Ga0255224_10372842F001781GGAGMKPQDKDKLNECLSILDTTDLGLSLVWLWTWSTIKNFMGDETFIMKKTEDEMWDCLCEAVEAGHGFSLEYGAEQHHEDVMEWMLNRDYMVDSMFEDEEDEDEDE
Ga0255224_10372843F000441AGGAGGMKMSDAYINDQLNKAQQLLWGGSETENIEAHNIISKLIKDRIEQVGDRG
Ga0255224_10372844F001019AGGMTHYGASLEILEVAYDVSPGGVRTFEVYDKGDSYDIMDMPIFETESLTKAVEYCYNLDKDFIVRTYAEWEMREMLADL
Ga0255224_10372845F034924GAGGLPIYRVFGTKYVNYYTIVSAADEYEAAEIANSRPTIDWDIIPIDDEIEATDVFLDDDTSIDLQLNM
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