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 Ga0222714_10161316

Scaffold Ga0222714_10161316


Overview

Basic Information
Taxon OID3300021961 Open in IMG/M
Scaffold IDGa0222714_10161316 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_3D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1333
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (85.71%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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

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)38.0516Long. (o)-121.88Alt. (m)Depth (m)13
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000441Metagenome / Metatranscriptome1136Y
F001019Metagenome / Metatranscriptome804Y
F001781Metagenome / Metatranscriptome635Y
F034924Metagenome / Metatranscriptome173Y

Sequences

Protein IDFamilyRBSSequence
Ga0222714_101613163F034924GAGGLQTYRVFGTRYQNYYTIVSADDEYQAAEIANARPSNEWNLIPIDDEIEATDVFLDEDTSIDLQLNI
Ga0222714_101613164F001019GAGGMTYGPSLEILEVAYEVSPGGVRTFEVYDKGDNYDIMDIPIYETESLTKAVEYCYNLGKDFIVRTYAEWEMREMLADL
Ga0222714_101613165F000441AGGAGGMKMSDTYINDQLNKAQKLLWGGSETENIEAHNIISKLIKDRIEQTEGQ
Ga0222714_101613166F001781GGAGMKPQDKDKLNECLSILDTTDLGLSLVWLWTWSTIKNLMGDETFIMKKTEDEMWDCLCEAVEAGHGFSLEYGAEQHNEDVMEWMLNRDYMVDSMFEDEEDEDEDE
 ⦗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.