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 Ga0129340_1218120

Scaffold Ga0129340_1218120


Overview

Basic Information
Taxon OID3300012963 Open in IMG/M
Scaffold IDGa0129340_1218120 Open in IMG/M
Source Dataset NameFreshwater to marine salinity gradient microbial communities from Chesapeake Bay, USA - CPBay_Sum_15_0.8_RNA1 (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2243
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
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 → Marine → Coastal → Unclassified → Aqueous → Aqueous Microbial Communities From The Delaware River/Bay And Chesapeake Bay Under Freshwater To Marine Salinity Gradient To Study Organic Matter Cycling In A Time-Series

Source Dataset Sampling Location
Location NameUSA: Chesapeake Bay
CoordinatesLat. (o)37.5161Long. (o)-76.1223Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006222Metagenome / Metatranscriptome378Y
F087221Metagenome / Metatranscriptome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0129340_12181203F087221AGGMSTTIGDLVDRVYREYLEPMDNIVSYTILGSGIDDTATEITFNGDLLSVEEEDALDAGAIIEIGQELMICTDLNAVTNTVTVTRGARGTTASSHLINSIIKITPPFARINVFNAVKDQIENLYPTLFAVEVQTLTSATGWVALEGADDDRIIAPLKAISQFTTLSDGDETSVQFRGVSVELIDVPTSVTSTGKAVQFNGIQTGVPVHVTFKKKFGTVTNEDTTLSDVGLETEYEPIIMAGVAAQMVAGKDIPTVTAEYITDQISVGNYPIGSSNSLRNSLLQYQQLLITQARKDLRARYPEPVQLNSVVYPSA*
Ga0129340_12181204F006222N/AVPRVPTTNIITNPKRYGYDVRIDTLLLRSAVGPNREMTIESSDVQEGQINVKQN
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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