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 JGIcombinedJ13530_108178040

Scaffold JGIcombinedJ13530_108178040


Overview

Basic Information
Taxon OID3300001213 Open in IMG/M
Scaffold IDJGIcombinedJ13530_108178040 Open in IMG/M
Source Dataset NameCombined assembly of wetland microbial communities from Twitchell Island in the Sacramento Delta (Jan 2013 JGI Velvet Assembly)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusDraft

Scaffold Components
Scaffold Length (bps)1184
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Verrucomicrobiae → Verrucomicrobiales → Verrucomicrobiaceae → unclassified Verrucomicrobiaceae → Verrucomicrobiaceae bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Wetlands → Sediment → Wetland → Wetland Microbial Communities From Twitchell Island In The Sacramento Delta

Source Dataset Sampling Location
Location NameTwitchell Island in the Sacramento/San Joaquin Delta, CA
CoordinatesLat. (o)38.107057Long. (o)-121.647578Alt. (m)Depth (m)0 to .12
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002738Metagenome / Metatranscriptome533Y
F013517Metagenome / Metatranscriptome270Y
F044444Metagenome / Metatranscriptome154Y
F093735Metagenome / Metatranscriptome106Y

Sequences

Protein IDFamilyRBSSequence
JGIcombinedJ13530_1081780402F013517N/AMFESLCATVLPVLKDFLWAAAGMLLTYMINKIQAQFNTI*
JGIcombinedJ13530_1081780403F002738N/AMSIDTYGLTFDEYSEFFQKNIRVSAKLYLDTCNIMTAEGVGNADFKTILDLYQEAVYTTNDDCRRYQRTNNPEALKESTVEIFGITPTREELMAEIQSVNAKLDALTDYIANLVTVTSAGLNGIVDSLDAPVD*
JGIcombinedJ13530_1081780405F044444N/AMTDDILEYARQLAMKPRNDTIPGDKRYDIEIPDDIHWELVKLAADLKMHHEDYAINILIGHVESELDRKAQA*
JGIcombinedJ13530_1081780406F093735N/AIFTQHDAWDLFFNMMEAGYAPFPGTSLPQLKSAIKK*
 ⦗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.