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 Ga0256311_1037487

Scaffold Ga0256311_1037487


Overview

Basic Information
Taxon OID3300026565 Open in IMG/M
Scaffold IDGa0256311_1037487 Open in IMG/M
Source Dataset NameMetatranscriptome of freshwater microbial communities from Columbia River, Oregon, United States - Colum_Colum_RepC_8d (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1121
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)46.1812Long. (o)-123.1834Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000962Metagenome / Metatranscriptome820Y
F030360Metagenome / Metatranscriptome185N
F045700Metagenome / Metatranscriptome152Y

Sequences

Protein IDFamilyRBSSequence
Ga0256311_10374871F030360N/AMSEQTYMNLKDAVKRPVLSEKTVNRSNKAFVRMVDSYQKWNESITADEPRATYEDDIFNCLFEYDLDGYNLAEYLKSKVNLAFCDAELVDILDDMIYVKKSLEDEMLKQWVKENFLTIPDDVIGKKVNAKQGYKKYENHYITTIRPDTYEVTISDNINKKGGYIVGFENVTFL
Ga0256311_10374872F000962N/AVENQEQTQIMNIHISEEIKFKYPHMEFRGKQRQLNDRTVIEAYNPATNQTFFYSFDEDFFWFPGQIPDYKLPKSILT
Ga0256311_10374873F045700GGAMNIRPSQCFECETGTYKDVTVNYFSQLSGGRSLVTKNVTIQRCDTCGAEIIDSKASQIIESNIERNFPGHYDKWKTKNKPRL
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