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 Ga0102919_1033473

Scaffold Ga0102919_1033473


Overview

Basic Information
Taxon OID3300007597 Open in IMG/M
Scaffold IDGa0102919_1033473 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1563A-02
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1591
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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)46.2103Long. (o)-123.7517Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002398Metagenome / Metatranscriptome563Y
F002406Metagenome562Y
F009266Metagenome / Metatranscriptome320Y
F019834Metagenome227N
F027179Metagenome195Y

Sequences

Protein IDFamilyRBSSequence
Ga0102919_10334731F002406N/AMENIKWIRAMSDRLRDELSSEYDDETKDLIIRAFMRGLYQDPSIVEELKSSSLIESDYFEDEE*
Ga0102919_10334732F019834GAGGMKELKFTITGTIFVPDNVEYENDFENQIYTFKINDKTYSLIAGLEADDKEMIVTDENFKSHDIKPFEYEDAYFED*
Ga0102919_10334733F027179GAGMPTLKIEKFIYMADGLFLYEKENSYVVMDQNDNVLKEAKTSKTCSSYISKTLQSRRAAERYAIEEINKSKV*
Ga0102919_10334735F002398AGGMIALISIFLLTALDPIKNFVSLKTYISENAKAHCYVYFINEDVPDFPRVNIIEKSKFDFFAYLDTIGIEHSKVGSYYFFQRKPK*
Ga0102919_10334736F009266AGGAMTNKERKILDKEIQYLCDYQDRVKAIREYTGIHPHKTFLNEVETIESLYRSVLENRKQCESTYFSVGTAGLFVVYLRDKKKYKEGEDFSIKIYHTFVWSDNLD*
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