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 Ga0222717_10001586

Scaffold Ga0222717_10001586


Overview

Basic Information
Taxon OID3300021957 Open in IMG/M
Scaffold IDGa0222717_10001586 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_18D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)18420
Total Scaffold Genes30 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)27 (90.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)37.0966Long. (o)-122.4216Alt. (m)Depth (m)38
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002804Metagenome / Metatranscriptome529Y
F053312Metagenome / Metatranscriptome141N
F072378Metagenome / Metatranscriptome121N
F095315Metagenome / Metatranscriptome105N

Sequences

Protein IDFamilyRBSSequence
Ga0222717_1000158611F072378AGGMENLNLSKSLEDCFEWELNDQIIRFDSIIDSLMSTDVPRSQFRDELIDWQDDVANLVDEVSALEPYEGFREFATMAEELFGTEV
Ga0222717_1000158622F002804GGAGGVEYLLDLYVLVTSLVTIASVVCNYTETPKDDEFVAKAYKVLEQFAFLGNKAKQ
Ga0222717_100015867F053312GGGGGMSYKILNEAVGLIRDENPLWEGSYQSLPDIAKDGLITLWLATHPTWMDDVFPHTVSDKRMLALECVYSEDATSRMAAAMFRDAAERNAKDVDNDAYLSEALDDFEAILDTPDFLEEIRHQIYMYLEPSMEELVMDSFQDLNHLDRLVMGSH
Ga0222717_100015869F095315GGAGGMSDQLMSSKIRDAHRFADKAIRQSYIEAKASSFRAWVTEPVVVYKIHLIATTLLLATFVGYELIVYPLS
 ⦗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.