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 B570J29032_109924402

Scaffold B570J29032_109924402


Overview

Basic Information
Taxon OID3300002408 Open in IMG/M
Scaffold IDB570J29032_109924402 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI, sample - 15JUL2010 deep hole epilimnion (Lake Mendota Combined assembly, ASSEMBLY_DATE=20140123)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2795
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (42.86%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Unclassified → 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?
F000273Metagenome / Metatranscriptome1401Y
F003579Metagenome / Metatranscriptome478Y
F005113Metagenome / Metatranscriptome411Y
F009125Metagenome322Y

Sequences

Protein IDFamilyRBSSequence
B570J29032_1099244022F003579N/AMTIPIAPYTMGSPAAPKVGTQFEVRYIQYTGVTAIADCHLLDAEGVEIMPVGLVPATAEQCAAWTDDAAFACVLAVNAGFELVSEE*
B570J29032_1099244023F005113GGAGGMTKEEHKNAIVQQLQQQSLNLLVDSLAAALAEIEQLKAAAAADKPTP*
B570J29032_1099244026F000273GAGGMSDEGSRHALIEKAAFAVLPILFSCVVYLMSSLSSLSREVTILKQQVSLVVTSDNKQATNTGAELAREKLRQDLEKEIQHNRDMIFENRQTIAVITERIGQFKK*
B570J29032_1099244027F009125GGAMNSDHTKDILTAATPAAAMVSLSQVNEVSALVGTLLGIAFLLWRWRREAKKED*
 ⦗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.