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 Ga0255243_1047908

Scaffold Ga0255243_1047908


Overview

Basic Information
Taxon OID3300024569 Open in IMG/M
Scaffold IDGa0255243_1047908 Open in IMG/M
Source Dataset NameMetatranscriptome of freshwater microbial communities from Columbia River, Oregon, United States - Colum_Atlam_RepB_8d (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1088
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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?
F006260Metagenome / Metatranscriptome377Y
F031030Metagenome / Metatranscriptome183N

Sequences

Protein IDFamilyRBSSequence
Ga0255243_10479081F006260N/AEKELTIKDKVNNPVVIQHDDLKFDGKNITIPGYYVGVLLDYVKDYKLDGVPQVDIEDYQSFRNFLYDIEEYKNQGK
Ga0255243_10479082F031030AGGAMGMFDDIVCKYPLPLPEDPKGYINDRYQTKDFDNAMDLYEIREDGTLWLHCAEYEYTDGNPNAKSLIEKLPTRKETKVWWQQILPITDTVRLYAYDSDTNETYDYWIEYDVTFVDGKVTGAKLLEFTATDNSERKEQHRKDVEYWTNRQKFEYTLFYRLIGKPYNKTISFICRTIHKSATWITYKIWNVERFLKI
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