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 Ga0180118_1264662

Scaffold Ga0180118_1264662


Overview

Basic Information
Taxon OID3300020063 Open in IMG/M
Scaffold IDGa0180118_1264662 Open in IMG/M
Source Dataset NameMetatranscriptome of soil microbial communities from meander-bound floodplain in the East River, Colorado, USA - East River metaT ERMLT730_16_1Ra (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2411
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Sediment → Unclassified → Groundwater Sediment → Soil And Sediment Microbial Communities From The East River, Co, Usa

Source Dataset Sampling Location
Location NameUSA: East River, Colorado
CoordinatesLat. (o)38.9229Long. (o)-106.9517Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001127Metagenome / Metatranscriptome769Y
F010847Metagenome / Metatranscriptome298Y
F056730Metagenome / Metatranscriptome137Y

Sequences

Protein IDFamilyRBSSequence
Ga0180118_12646622F056730AGGAGMDKYVEQYHAWGGGLSPPMRTNVQGWKEGNFSITEVPGTPLPAWFKKILRSKKNLADIEAAIEKIPLVDG
Ga0180118_12646623F010847GGAGGMVSVVILMVIGLGIGGIIWLRRLRWQAYATPDSPGVIPRETQALHAFAHGNTCLAAGHFAEAIAAFHQARELRPEHPHVAGRLAEVERQQQAASAMAFANSAV
Ga0180118_12646624F001127AGGAGMASYIEQYQSKHGGVTLHTWTEVQGWKKENFYITGVSGTPVPSWFRAVLREKRLTDIADFPYAPSGFYE
 ⦗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.