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 Ga0114340_1022054

Scaffold Ga0114340_1022054


Overview

Basic Information
Taxon OID3300008107 Open in IMG/M
Scaffold IDGa0114340_1022054 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Harmful Algal Blooms in Lake Erie, Western Basin, USA - Station WLE2, Sample E2014-0046-3-NA
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterUniversity of Michigan
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2992
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (90.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater, Plankton → Harmful Algal Blooms In Lake Erie

Source Dataset Sampling Location
Location NameLake Erie, USA
CoordinatesLat. (o)41.7635Long. (o)-83.3309Alt. (m)Depth (m)4.9
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000263Metagenome / Metatranscriptome1424Y
F002387Metagenome / Metatranscriptome565Y
F009685Metagenome / Metatranscriptome314Y
F033433Metagenome / Metatranscriptome177Y

Sequences

Protein IDFamilyRBSSequence
Ga0114340_10220542F002387AGGAGGMASFLEDVNQMVIDACYQDIAEQLLEQWINNNLDEGQYYADKQFAEMSGDEFIQSEFNKFYNLNEGDEDYLC*
Ga0114340_10220545F000263GGAMNAEDIGLPPHLQRMVNADVPGIDIMHGELKNLMLIAEQDLKDALEQEERSEEAMDSMVRTECEGRLDTLVELYKLTYDLSFAIGVREENKKDGH*
Ga0114340_10220546F033433AGAAGGMYNKPSLEIIEVNYSCSPGGVDEFEVYSTDERDFADYPLYSSESLAKAVEYCYQLGKDFTVRTVAEWEERELAYEARG*
Ga0114340_10220548F009685GAGGMKMSDQYVDSVLAEAQRLLWGGSETENIEAHNLISNLIRERVEQKNLN*
 ⦗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.