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 B570J40625_100015342

Scaffold B570J40625_100015342


Overview

Basic Information
Taxon OID3300002835 Open in IMG/M
Scaffold IDB570J40625_100015342 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - (Lake Mendota Combined Ray assembly, ASSEMBLY_DATE=20140605)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)13430
Total Scaffold Genes42 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)20 (47.62%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Associated Families7

Taxonomy
Not Available(Source: )

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)43.099444Long. (o)-89.404444Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000345Metagenome / Metatranscriptome1253Y
F000744Metagenome / Metatranscriptome909Y
F003331Metagenome / Metatranscriptome493Y
F004546Metagenome / Metatranscriptome433Y
F004898Metagenome / Metatranscriptome419Y
F007569Metagenome / Metatranscriptome348Y
F085168Metagenome111Y

Sequences

Protein IDFamilyRBSSequence
B570J40625_10001534213F085168AGTAGGMIRKIRILLWKIVSDWEQRLYPYEKEDTGDYYYTVKNEETGESYMIIEWIKSFDERIQRLQDEMLWVLTEIRELKK*
B570J40625_10001534223F000345N/AMEENKKNDLGKSLQKWWDSDDFKKLQKDLEESKQRAVGKYFMLSESDKLDMVQAICYIMCKAEKEGCSHRGLQDELGIYPAGFWIDHLMDVHNALWSFFHDQKNEKDLKDDLDRLDDFIK
B570J40625_10001534234F004898AGGMDLSELIEELREIEIYGSEPADWMGYLYDDDSWVPDHELAY*
B570J40625_1000153424F003331N/AMTEKDKIFHNVWCCAYRRRYAAKLKQDWELYKREHQTLLMCLKIAKWTTFDSEKPHYLK*
B570J40625_10001534242F000744GGAMGEITVNLNVHEMGVILSALQNLENVDEHRIAREYGSVPALYDKLYSYWEQMDRSQTGIRNDVVPSF*
B570J40625_1000153428F007569GGAGMNFTPEQYKLIFTAVRRYQFEKTVLDSKEYHQCGEILDELFDSVYTQRVEKPT*
B570J40625_1000153429F004546GAGMDYTEDFPFDQFPWKLVHKEGKETRKCYFQTEDHMKKHIARYNLKKKDYTIGYKYSEEK*
 ⦗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.