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 Ga0244775_10061177

Scaffold Ga0244775_10061177


Overview

Basic Information
Taxon OID3300024346 Open in IMG/M
Scaffold IDGa0244775_10061177 Open in IMG/M
Source Dataset NameWhole water sample coassembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3250
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (100.00%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)7 (100.00%)
Associated Families7

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000263Metagenome / Metatranscriptome1424Y
F000868Metagenome / Metatranscriptome853Y
F001043Metagenome / Metatranscriptome794Y
F007644Metagenome / Metatranscriptome347Y
F025737Metagenome / Metatranscriptome200Y
F036238Metagenome170Y
F038241Metagenome / Metatranscriptome166Y

Sequences

Protein IDFamilyRBSSequence
Ga0244775_100611771F025737GGAGMKPEDKDKLNECLKILDTTDLGLSLVWLWTWSTINNIFEDETYKHNVTIDQMWDHLCEAVEAGQGFSLE
Ga0244775_1006117710F001043AGGAGMSDYKDGFQDGYKFAREELMEKLSEIDITDIDSWILDRLAEMIEGGAL
Ga0244775_100611772F000263AGGMNAEDIGLPPHLQRMVNAGVSGLDIIHGELKNLMVIAEHELMLAQETEDLSEEAMDSMERTRCEGILDTYCELYKLTYDLSFAIGARNEA
Ga0244775_100611773F007644GGAMTKSSYFLEYMKLHLISLEQDLESNPESINVIDIPGQIEATRHLLSVATDIMNSTNERYE
Ga0244775_100611775F038241AGGAGGMLGYTKEDLDQMSNAVHDAKLFYIRNSGVQQVDKDPLIEGLLKAQDFLQGLWAEGYFD
Ga0244775_100611776F000868GAGGMSDPHGIIDPYRKGGSMSFLENENQMVIDATYSEIGEMLVEDWVNSNLDEGQLFADFRFAEMADNNYLKGRFNLFYDLKPGDQYYLEHEEE
Ga0244775_100611778F036238GGCGGMGDRANFGFKQSNGETIVLYGHWAGHQMLSNLADAIAVAEPRWADESYATRIAISQLVGKEWTSETGWGLSVNRILDNEHKIPIIDWEKKTFSLHEEEPWSEDGNHFKVRGMQDEPIFTMTLENFVSKYSSQLSMV
 ⦗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.