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 Ga0210295_1005864

Scaffold Ga0210295_1005864


Overview

Basic Information
Taxon OID3300021323 Open in IMG/M
Scaffold IDGa0210295_1005864 Open in IMG/M
Source Dataset NameMetatranscriptome of estuarine water microbial communities from the Columbia River estuary, Oregon, United States ? R9.63AS (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5149
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (72.22%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → Kyanoviridae(Source: UniRef50)

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 NameUSA: Oregon
CoordinatesLat. (o)46.249Long. (o)-123.986Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F008358Metagenome / Metatranscriptome334Y
F010764Metagenome / Metatranscriptome299Y
F037700Metagenome / Metatranscriptome167Y
F066719Metagenome / Metatranscriptome126Y
F071163Metagenome / Metatranscriptome122N

Sequences

Protein IDFamilyRBSSequence
Ga0210295_100586412F010764GGAGMIEIEKNYKLTLTEQQAKELYWILKDVDLGVDNELKLVYHELKKLFDTGIR
Ga0210295_100586413F037700GGAMKKYRIKKETYGNTTKYFPQEKFLYSWYNIFAYEVYFDGGYDTLEEARKRLCEYCREPVVEYLDFEPARDCK
Ga0210295_100586414F071163GAGGMTKTQSALERVIIELDSWCDNWTPTSYNDPRISLRQIADRARNVLEQEKND
Ga0210295_10058645F066719AGGAGMVVLLTTTIITCSDALSVIQRISKVVGLTNLQRTEIIQEIRKVIPSCPIKVVKNE
Ga0210295_10058647F008358N/AMSSTYIYFVIFFCIAYLIVTDQSVARGFYMLTQLARVEYEKVKWWILHNPANPIVKYLIWRKSMKIAEELLKEYRDKN
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