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 Ga0207938_1000122

Scaffold Ga0207938_1000122


Overview

Basic Information
Taxon OID3300020525 Open in IMG/M
Scaffold IDGa0207938_1000122 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 05MAR2012 deep hole epilimnion (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)13045
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (7.69%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families6

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa

Source Dataset Sampling Location
Location NameLake Mendota, Madison, Wisconsin, USA
CoordinatesLat. (o)43.098333Long. (o)-89.405278Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001808Metagenome / Metatranscriptome631Y
F003299Metagenome / Metatranscriptome495N
F003327Metagenome / Metatranscriptome494Y
F004234Metagenome / Metatranscriptome447Y
F015420Metagenome / Metatranscriptome255Y
F025502Metagenome / Metatranscriptome201N

Sequences

Protein IDFamilyRBSSequence
Ga0207938_100012211F003299N/AMCQLKTMTMKIYKVVFKTFDYWNGPVKLVTRIIEAYDANHVKQLIQKNDDLIMLIEEI
Ga0207938_100012212F003327N/AMTEFTQLAIKVQDEIANGDYTHQKYLQFREWYFQNYEGSKRNANRDFAMFDLMYGLDVPIKNNDNEDI
Ga0207938_100012213F004234N/AMNFIDLYKNGNQYISNWTTDYDSDVYIAGTIEPFTYDATETDDGDMSQFPLSDANLNLLKSKL
Ga0207938_100012214F015420N/AMKKIINYFTPVGEEQKAFAKALMLVVTAMISIVFLFPLLNLLS
Ga0207938_100012217F001808N/AMRYLAIILLLSSCSAQYHLNKAIKKGYKCEETGDTIRITTLDSIPVIIHDSIVWEKFITTKDTIIKYNTVYVPKTRLDKKIEYRLKVKTIYKDRIVEKAQAKATRPRTRGNLNLLFVGVGIGLLLSYLFKFARDKYLF
Ga0207938_100012226F025502N/ATEEMAIDPAADAEAILAIVQPVIDEQINAIIAMIADLRNHMEEVMSEGEEVVEVEATKLSQHDKFSMVSKFLNNNN
 ⦗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.