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 Ga0209856_1000088

Scaffold Ga0209856_1000088


Overview

Basic Information
Taxon OID3300026837 Open in IMG/M
Scaffold IDGa0209856_1000088 Open in IMG/M
Source Dataset NameGroundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T2_25-Nov-14 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4392
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (30.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Sand → Unclassified → Sand → Groundwater Microbial Communities From The Columbia River, Washington, Usa

Source Dataset Sampling Location
Location NameUSA: Columbia River, Washington
CoordinatesLat. (o)46.372Long. (o)-119.272Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F041193Metagenome160N
F052587Metagenome / Metatranscriptome142N
F052596Metagenome142N

Sequences

Protein IDFamilyRBSSequence
Ga0209856_10000884F052596N/AMNYEKFKQIIDLQIAHNKRSDELYALKIDLLDTFNEISRANELLWEELLTENGDYHLCYYLYEMNGMYGTPNLNEEYKDTKELYDYLIENKGFK
Ga0209856_10000887F041193N/ALTAYSQSLLINNKDTLICFSSDKAKFLAKQYHKAEAFYLSDSLCQQQVILKTNQVNLYKKNEDKLQTIIGNQVSIIKYKDEENKSLTIQMKGLNLEVKKQKRLKGISIIFGVSCLVFALV
Ga0209856_10000888F052587AGGALINLVQENNIPDKFVMSNKSIILCLITLCVHLLILWFLYSPYNELGIIQNYRIEIDSLNKVNDSLYSDIKKNKIIIDKYTQELNVLENKKQTVIIKYKTKVNEIDTLNNNNLVAEFDSIFSKFTNK
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