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 Ga0070744_10043006

Scaffold Ga0070744_10043006


Overview

Basic Information
Taxon OID3300006484 Open in IMG/M
Scaffold IDGa0070744_10043006 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary, USA - metaG S.535
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1328
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001781Metagenome / Metatranscriptome635Y
F002387Metagenome / Metatranscriptome565Y
F005504Metagenome / Metatranscriptome398Y
F007644Metagenome / Metatranscriptome347Y

Sequences

Protein IDFamilyRBSSequence
Ga0070744_100430061F005504N/ATLEYEEETGWGGEYEILRGDVKELISYENRCYACQSYDTLSYCEDDCGEFCSECNQGSWQDEEAMKECQTHMVLLTPTEKVEV*
Ga0070744_100430062F002387GAGGMSDPHGIIDPYRKGGSIMASFLEDVNQMVIDACYQDIAEQLLEDWINNNLDEGQYYADKQFAEMSGDKFIYDEFNKFYNLKEGDEDYLC*
Ga0070744_100430064F007644GGAGGLTTQTKSSYFLEYMKLHLISLEQDLEMNPESINVIDIPGQIHATRHLLSVATDIMNETKEN*
Ga0070744_100430066F001781GGAGMKPEDKDKLNECLKILDTTDLGLSLVWLWTWSTINNLLEDETFKAKVTQDQMWDHLCEAVQAGHGFSLEYGAEQHHDDVMEWMLN
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