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 Ga0105746_1008148

Scaffold Ga0105746_1008148


Overview

Basic Information
Taxon OID3300007973 Open in IMG/M
Scaffold IDGa0105746_1008148 Open in IMG/M
Source Dataset NameCoastal water column microbial communities from Columbia River Estuary, Oregon, USA - CMOP_DNA_1460A_0.2um
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterOregon State University
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2938
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (10.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Coastal → Unclassified → Estuary Water → Microbial Communities From Columbia River Estuary, Oregon, Usa

Source Dataset Sampling Location
Location NameOregon, USA
CoordinatesLat. (o)46.2357Long. (o)-123.9153Alt. (m)Depth (m)1.2
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000716Metagenome / Metatranscriptome923Y
F010462Metagenome / Metatranscriptome303Y
F076942Metagenome / Metatranscriptome117Y

Sequences

Protein IDFamilyRBSSequence
Ga0105746_10081487F010462N/AMMYQLPNGKVVYLSIEEFLDLTDEDIQYLMSIDYGEHIRDPFTGSAVDKTSSEKYYDFAFLPDDEVLNDLDSENLFFDEIIDPTEDL*
Ga0105746_10081488F076942N/AMNSKVFVVADETGSVINVSENSEYGYVRVQQTRTMIDDNGFVRRKNVSALMPGLLQDLNEMNLYGGQGLDGKIVIEESLSPFNKKTPERDYKVAGKTGIICTLGGLPIYRRTKFSFNQSAVDTTIDHDNIEQLREAYAAQQVKENVDVNEDFSI*
Ga0105746_10081489F000716N/AMEKLKEDLKEYQLNAGKTYMHYQQDKYSIYQNYLYKRALYGLNALEEKEINSMCNKKKQRIINVYKRSQNILNVLKQKISITYTNNIFTKLFPNSNLTKDIITNTEIDEKFTNILTFKDLNISKEQIISIFMSEGILPKNFLSLQENPSQLPRLRNDKA*
 ⦗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.