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 Ga0184641_1184060

Scaffold Ga0184641_1184060


Overview

Basic Information
Taxon OID3300019254 Open in IMG/M
Scaffold IDGa0184641_1184060 Open in IMG/M
Source Dataset NameMetatranscriptome of groundwater sediment microbial communities from an aquifer in East River, Colorado, USA - PLM0_5 (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1350
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (100.00%)
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 → Sediment → Unclassified → Groundwater Sediment → Soil And Sediment Microbial Communities From The East River, Co, Usa

Source Dataset Sampling Location
Location NameUSA: East River, Colorado
CoordinatesLat. (o)38.9195Long. (o)-106.9496Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000818Metagenome / Metatranscriptome878Y
F004649Metagenome / Metatranscriptome429Y
F020088Metagenome / Metatranscriptome226Y

Sequences

Protein IDFamilyRBSSequence
Ga0184641_11840601F004649AGGAGMQDQKNQTRQKSRFNVTKLEERIAPSSANFPPGQFPSGNPAHAPGNSNPNEVPSNNPSND
Ga0184641_11840602F000818AGGAGGMQDQKNQTAQKSRFTVTKLEERIAPAITTIHVNGGGNTPNGQANGVPTVAVNPAGHAPPGQN
Ga0184641_11840603F020088GGAGMQDQKNEKSRFTVAKLEERIAPAIVLVNPGGNTPQGSGANNGQAIEAQNPAGHAPPGQN
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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