NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0244776_10004426

Scaffold Ga0244776_10004426


Overview

Basic Information
Taxon OID3300024348 Open in IMG/M
Scaffold IDGa0244776_10004426 Open in IMG/M
Source Dataset Name0.2um to 3um size fraction coassembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)13214
Total Scaffold Genes34 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)25 (73.53%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000311Metagenome / Metatranscriptome1326Y
F003422Metagenome / Metatranscriptome487Y
F051126Metagenome / Metatranscriptome144Y
F087194Metagenome / Metatranscriptome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0244776_100044261F000311GGAGMYFELTAPDRLSMEMAYWDAQIIGLDPQAMSPLTFNIGTGSIEKVSKIRDKYNLTESYISDYETTG
Ga0244776_1000442615F051126AGGMSAKAYTIESLLEGKHYRSHSRHDEGTILYATKREGIWYGENLEAYAIEVRPTRGIKNFWATIAVRVSD
Ga0244776_100044262F003422N/AMTNELVSSVYTFVCDPDECDCLIQLTSSDGFGFPSGVTELTCPCGRKTTLVSVEHATITSLNQTKEGSNMDGMTVENLPLSDAEKYNPDQLVTYKVIRGYSDAEYATDKVRNIEYELHNGRTNSKAVSSLQNKIGLVKDIISEAYADSEDQETLQAIAEALEIELVKEIEWSASIEVSGTISVNLLEDTHFDLDSEIEDALYADSHNGNIEVNDQEICNIRENC
Ga0244776_1000442623F087194AGGMTLDEYKQMVEAQRLASLAVALEALTKSNAIAKEMNK
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.