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 Ga0255268_1014347

Scaffold Ga0255268_1014347


Overview

Basic Information
Taxon OID3300024572 Open in IMG/M
Scaffold IDGa0255268_1014347 Open in IMG/M
Source Dataset NameMetatranscriptome of freshwater microbial communities from Altamaha River, Georgia, United States - Atl_Yuk_RepB_8h (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1893
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Source Dataset Sampling Location
Location NameUSA: Georgia
CoordinatesLat. (o)31.4271Long. (o)-81.6053Alt. (m)Depth (m)5
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F012670Metagenome / Metatranscriptome278Y
F017628Metagenome / Metatranscriptome239Y
F025723Metagenome / Metatranscriptome200Y

Sequences

Protein IDFamilyRBSSequence
Ga0255268_10143471F017628AGGAMATYDIEALKADLPTAKELAQFVYDKTQIALDLVGKSKEDQYQVAKNALEGKKVPAEFLTDENPYVDRKELIPVDEIRKLPPRSEDLPPVESQVHFFGATNMPHPLDPQSDRKVGINFKKYFDGTITYQVMGPLE
Ga0255268_10143475F012670GAGGMFDQPIRPEGSHVSLEDKKAQARAYAAQKRAAKKAEKHAMGLATGRTAPTGVVNKGGRPKSVVNRVTEYGALFNKLNEAHVEKGLPPLKTAMEVLIEAMQSDELDLKEKAKIAEKLATFESSRAPVISIEHVQNLVKEEDVTADDALDEFLDSLRKV
Ga0255268_10143476F025723N/AAVCRGTKITDHGWFHVEDPDDLKAFCWFDRGGYTTYSNEEISNAKFHHVDLSLSVRQRVKLINEMIDQHILWAHTWGIPVVCSTSIRSDDDGFMKIHKKRGFTVNGSYAWIRTEEAAKCLINQ
 ⦗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.