NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0208232_1000962

Scaffold Ga0208232_1000962


Overview

Basic Information
Taxon OID3300020527 Open in IMG/M
Scaffold IDGa0208232_1000962 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 24AUG2012 deep hole epilimnion (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5411
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (20.00%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (14.29%)
Associated Families7

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa

Source Dataset Sampling Location
Location NameLake Mendota, Madison, Wisconsin, USA
CoordinatesLat. (o)43.098333Long. (o)-89.405278Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000785Metagenome / Metatranscriptome891Y
F001754Metagenome / Metatranscriptome641Y
F003291Metagenome / Metatranscriptome495Y
F007113Metagenome / Metatranscriptome357Y
F009005Metagenome / Metatranscriptome324Y
F011393Metagenome / Metatranscriptome291Y
F018718Metagenome / Metatranscriptome233Y

Sequences

Protein IDFamilyRBSSequence
Ga0208232_10009621F000785GGAMRVTNKRGMKFDCTKLMNWAQDLLGPSKCTAIAFTWDSEEESCGWYNWDETIWINLASCKRMITVQKTILHEWTHAQQTFRWYNHYNIKYGYAKNPYELEARENERLVKRAYKKRK
Ga0208232_100096212F001754N/AMNTVYNNFAASKMSNNPRFEVVVSFRDFMGKEHNIVCKTRKKLVEANQFLKMFKTESVAIGKILGEYPVVMGEYPKKYHSEIKRELASAGFGSVSNFLIK
Ga0208232_100096213F003291N/AMNTKEINEKLVSVFTQDELAALMTAMAGYVNVKRKQGRSTGIECVVFNKVTDALLLSNYLNAEVIDTKPNSNAPMGSAAYKAYEAMYDSDVRAHS
Ga0208232_100096215F007113N/AMKIRLELTPEQLKTVEIALNELFNSDRWIAGRKEADIDKIAVGAAYLLHVIESY
Ga0208232_10009622F011393N/AMGEQIAYNKCEHCNIELHTNDAGEYYPVINRMDKHTLMRGEYIPIGNHLQYPRNWGKQKGATVLLETRIQDKRKQLEEAQLELDKLTACLDKVKHWDSTEK
Ga0208232_10009623F009005N/AMSEHEMIQRASALGLDEELISYAKQIQSQLSGDGDTAFWIDCLQMAYNEIIQPT
Ga0208232_10009626F018718N/AMTIREFYVKNYPSDDMGDGINPTATFAGLLNQLIVGGDVYEYLYVYDSIIRERLFERLAEELNVKYDYVYNLWIK
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