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 Ga0102820_1003342

Scaffold Ga0102820_1003342


Overview

Basic Information
Taxon OID3300007554 Open in IMG/M
Scaffold IDGa0102820_1003342 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - Ebb tide non-ETM metaG S.709
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4495
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
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)46.2Long. (o)-123.94Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009521Metagenome / Metatranscriptome316Y
F021404Metagenome219Y
F022084Metagenome216Y
F080492Metagenome115N

Sequences

Protein IDFamilyRBSSequence
Ga0102820_10033422F009521AGGMKYKIIINNGTLKGFLAFRGSCLATMQDKYKRLEQQGHKLKLIRGE*
Ga0102820_10033424F080492AGGAGMSKVHHTQYKKNYKNYILDCLETEDELIGKNLSDDEKINYLFDRFGNEYGFQIERIGEYRAMTEWLSGLAINIPYTYSDIIELAIDMGSIDNNPSEALKDRVIENYFSFMANVILSFKSKEVA*
Ga0102820_10033425F022084GAGGMTHQKYLKELFKLIEGKGYTIECECEGEEITKDEALTQVDETAIYVIDKDGHSLGWIYFLFWNDWDESISDYTLDLDKILNLDGFIKSFTYNY*
Ga0102820_10033426F021404GAGGMTYKINDKIDYFFKGDEDNEPCNDVMIVKALKDLDNDEVFKLKPTANNNNVLVKGDYDKSTGKYWATKWHDMNNETLKDGNTLVFTGFIF*
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