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 Ga0214170_1000233

Scaffold Ga0214170_1000233


Overview

Basic Information
Taxon OID3300020731 Open in IMG/M
Scaffold IDGa0214170_1000233 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Trout Bog Lake, WI - 27JUN2007 epilimnion
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusDraft

Scaffold Components
Scaffold Length (bps)22982
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)21 (80.77%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria(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 NameTrout Bog, Vilas County, Wisconsin, USA
CoordinatesLat. (o)46.041Long. (o)-89.686Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002722Metagenome534Y
F030331Metagenome185Y
F036062Metagenome170Y
F044873Metagenome153Y
F079523Metagenome115Y

Sequences

Protein IDFamilyRBSSequence
Ga0214170_100023312F036062AGAAGGMALNHINVTVGTNPTLLVTLPNGVGYVAVQIQNRDSAPVYLGDSLITVASGANGGQVLAPGATVQIWMHGNESIYAISTAGTTTGAVCLVYSA
Ga0214170_100023317F002722AGGMANVGRVQLRSTLYSYLTGASISGLNQVFTSFPKRINYQVNATAGQMSRAAAVIFIASERETRLAIGGATNGWKRVDFQVVLQIFHHSLQNNAEDAMADFDTLIDNIKNTLRASHNFGDSTQVNVWQGAEPVIDCLYGEPTTSDNGATETFAEIRFDVTQMIQA
Ga0214170_100023320F030331AGGGGGMSRKISLPSGATVTIKDASELKVRDRNRIMLASDEGNAAQKGIAIGNALLAAIVEDWSFDLLIPSVKVESIEELSIPDYTALMKETDDLTAELFPDLKNTVENASDPKVTTENSND
Ga0214170_10002333F079523AGGAVVDELWTSKQVVEYLGITINNLRQLQFRKTIVWVKREGKAVFYLADDVRAYKEKREARKK
Ga0214170_10002335F044873AGCAGMIIDKDEITIADIDEAIAHLAELLKDRYGNRLTHQRKAFLMGEMDSLLDARLEALSELGNSNNREFSSRPAECSPSL
 ⦗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.