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 Ga0256305_1016406

Scaffold Ga0256305_1016406


Overview

Basic Information
Taxon OID3300028108 Open in IMG/M
Scaffold IDGa0256305_1016406 Open in IMG/M
Source Dataset NameMetatranscriptome of freshwater microbial communities from Columbia River, Oregon, United States - Colum_Yuk_RepB_8d (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1852
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
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?
F010462Metagenome / Metatranscriptome303Y
F044434Metagenome / Metatranscriptome154Y
F076942Metagenome / Metatranscriptome117Y

Sequences

Protein IDFamilyRBSSequence
Ga0256305_10164063F010462N/AMLYIYLHIYMPVMLYQLPNGKVVNLSVEEYLDLTDEDIQYLMSIDFGDHIINPFTGSAVDRNTREKYYDFEFLPQDEEDINDIVSDDIPFDDIIDLSDNLDM
Ga0256305_10164064F076942N/AMNSKVVVLADEATGAVVNVSTNNPEYGYIRVQQIRTMIDDNGFLRRKPVSALIPGTLAELKDSGFFAGQQLDGKIVVEESLEPFNEKNPERDLKIAGETGVVCTLGGLPIYRRTKFSFDGNGADTLIKHDNVEQLRAAYAVQNGKSSAIRPNVSEDFSIGG
Ga0256305_10164065F044434N/AMIKMEKLKQDVRNYQLNGGKTYMQYEQDKYSVYQNYLYKRALYGLDALNEQELA
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