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 Ga0058897_10069446

Scaffold Ga0058897_10069446


Overview

Basic Information
Taxon OID3300004139 Open in IMG/M
Scaffold IDGa0058897_10069446 Open in IMG/M
Source Dataset NameForest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaT HF230 (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1272
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families2

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Harvard Forest Long Term Ecological Research (Lter) Site In Petersham, Ma, For Long-Term Soil Warming Studies

Source Dataset Sampling Location
Location NameHarvard Forest LTER, Petersham, MA, USA
CoordinatesLat. (o)42.531427Long. (o)-72.189946Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004601Metagenome / Metatranscriptome431Y
F014965Metagenome / Metatranscriptome258Y

Sequences

Protein IDFamilyRBSSequence
Ga0058897_100694463F004601GAGMLLGVRVQVRPATGAIEEVRATVPVKPLSGATVMVEVAAVPALTVRAVGLAATVKSLMVTVTVAE*
Ga0058897_100694464F014965N/AVLVPEPVTLVGARAQVRPVAGETVDDNDTTPAKPWRPVTVIVDVAAVPALTLTAVGLAEIVKSCTA*
Ga0058897_100694465F014965N/AVTVYAPALPVHESVEVPEPVTLVGVRVQVKPVAGDTVAVRLTTPLKPWSAVTVIVDVPAVPAITVTLVGLAAM
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