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 Ga0102856_1000256

Scaffold Ga0102856_1000256


Overview

Basic Information
Taxon OID3300007636 Open in IMG/M
Scaffold IDGa0102856_1000256 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1371A-3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5840
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (76.47%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2342Long. (o)-123.9167Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000263Metagenome / Metatranscriptome1424Y
F000852Metagenome / Metatranscriptome860Y
F001460Metagenome / Metatranscriptome690Y
F047059Metagenome / Metatranscriptome150Y

Sequences

Protein IDFamilyRBSSequence
Ga0102856_10002562F000852AGGAGMATKREYLKAQGITVGVRGRFSGAAKVALAEAVAKGVTFTAETPAKKAK*
Ga0102856_10002565F000263AGGMNKEDIGLPPHLQRMVNARVSGLDIIHGELKNLMLIAEQDLADALEQEERSEEAMDSMVRTECEGRLDTLVALYELTYQLSFAIGEQIEV*
Ga0102856_10002566F047059GGAMKIHKISLEQDLEDARNNIPLNEDEYFESDAYYTGAIDTMEHILSVADDIMNNSNERYINE*
Ga0102856_10002567F001460GGAGGMLGYEKKDLDTMINSVHDAKLFYLRSPSDLMDKTELRTNLEMTVSFLQGLWAEGYFD*
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