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_10003321

Scaffold Ga0244775_10003321


Overview

Basic Information
Taxon OID3300024346 Open in IMG/M
Scaffold IDGa0244775_10003321 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)17135
Total Scaffold Genes37 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (29.73%)
Novel Protein Genes13 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (15.38%)
Associated Families13

Taxonomy
Not Available(Source: )

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?
F000957Metagenome / Metatranscriptome821Y
F001055Metagenome / Metatranscriptome791Y
F001298Metagenome / Metatranscriptome727Y
F001338Metagenome / Metatranscriptome719Y
F001725Metagenome / Metatranscriptome645Y
F001923Metagenome / Metatranscriptome617Y
F002038Metagenome / Metatranscriptome600Y
F002413Metagenome / Metatranscriptome561Y
F003583Metagenome / Metatranscriptome478Y
F005588Metagenome / Metatranscriptome395Y
F006659Metagenome / Metatranscriptome367Y
F015597Metagenome253Y
F042341Metagenome / Metatranscriptome158N

Sequences

Protein IDFamilyRBSSequence
Ga0244775_1000332116F042341N/AMSSPRPKSDPPAVQYGEPHFTFRVLGRVKPTHDPKCPTPFGYCWKGFGDIHVDPRQSEEEMIDTVAHELLHDALPYLDEEAVEKAANRIASAMWKLGYRRTVIE
Ga0244775_1000332118F001923N/AMSAPLDPESIPKELKDGVIASILGGLAMTARLLLSQEPVSVGWVIRRVLAAAITAALVGYAITDHIESPGLRMGVVGAAGYAAPECLDYLMRYIKNKGDAEVGPAKKPHGKSKAPGKAKRKR
Ga0244775_1000332119F003583N/AMAKAKPQAKPSGSANLLLAVTLLTVFAGVSALSSAYISGYVLDTLQSRDALVMIVTDAGIKSDSATVEQGLSAATLALKAVRDLGWALAVGCLGVGLAVFLRSRRQKAS
Ga0244775_100033212F001298AGGCGGMSLYADFLADAKEMIADFGVAGSANSGAITFQCLISDPAVMTVLEAGGYMERTQYSVRMPAVTASWTLPDGSTGSSAALLSAGVPIASLGQGKKIVAGGKTVRITTQTYKPGSAWITLVVIDDNQ
Ga0244775_1000332123F005588N/AMPDPLAHSPDMITTIRPNKMPAFWWLVPWAYARTLHMSANAVKAYADRLDDILDIQRGIIEQQAADIRLLKARVRDQDDAIIKGTAITPDAYPHE
Ga0244775_1000332124F000957N/AMSSFQHLEGMRNLLIEIYEVNERIMTGDICSAKAAIASTNVKKILAHYHEALHEDGATKVSLQAYVAAGGWVGIQYSYELDGFEVAGSQVPRRV
Ga0244775_1000332128F006659N/AMKKDIKSPSEYRIIADSSYIVLPDQKVARLLTPTVRNGVTYYNLFVPDYTRMSLADIEATIKAGEVTKSTDAK
Ga0244775_1000332130F015597N/AMSQPDFNPFDPISAAMGAMHGQNLLAAKDARIKQLEERLEGMREAGDELWYCVRHAQRIDADALIEAIEEWQEARNHA
Ga0244775_1000332132F002038AGAAGGMSSPLPAGIKRIARTVSGQYALLLLLDGYPYVEMTARKHADFLSDLGLWKRKTHPSLARSQVRFFTLAPNGEIKELTFNR
Ga0244775_1000332135F001338N/AMTTENNDRPPLTSISTNGTYKLKLIKPKFEKVKVWEDGTCSARLFFVDDKGFCLSKNFSTKYGKALAMLVGKYSGKFTEEIRLDATAAEYLQYLEPACGQTILVGVEVEANGEYNGRPQYKYKMTYPKGSQKPTVPDALPPEGVNF
Ga0244775_1000332136F002413N/AMAAPTLVLISGFARAGKDTLASGLLEWSTRPAEHINFADALKEAGNHFMDYLGLDGNFMNEEFKCENRDTLVNMGKFARRLDKDVFARHFANWVPVMKHHDSVSPETVVCSDWRYINELRVCQDILWEKGWKVRTVYVSTAGIGPANDEELDSIAEIRASHLFDQEYIFKPNARQQIMSEGRILAKSWRL
Ga0244775_100033214F001055N/AMGTKSIRHIVEATVATYLSTQTGLTTVTFLTGDNNATQTLPKAVVLCEAARAPSDLPEGEGNFSCSVRITLFSNADDTTLADHRLRCAALSGNMRDLTSIKAAFTATGDASCYDVTMQSEDEGIDERSWATSFTFDILTVFPA
Ga0244775_100033215F001725N/AMAAISNGTTCLYGVAGTVTNLFVQSYSLSSSFNAEATVVDEAGLTKTHRLDDRKSEITIEGICKTSTMPVLGAALSFTLNAQTAYPSGSASVSFAGTITKIDEKGSNKGFTAVTVTAIDYEGITPA

 ⦗Top⦘



© 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.