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 Ga0114347_1002747

Scaffold Ga0114347_1002747


Overview

Basic Information
Taxon OID3300008114 Open in IMG/M
Scaffold IDGa0114347_1002747 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Harmful Algal Blooms in Lake Erie, Western Basin, USA - Station WLE2, Sample E2014-0106-C-NA
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterUniversity of Michigan
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10883
Total Scaffold Genes32 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (50.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater, Plankton → Harmful Algal Blooms In Lake Erie

Source Dataset Sampling Location
Location NameLake Erie, USA
CoordinatesLat. (o)41.7635Long. (o)-83.3309Alt. (m)Depth (m)4
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000325Metagenome / Metatranscriptome1296Y
F006543Metagenome / Metatranscriptome370Y
F008812Metagenome / Metatranscriptome327Y
F012108Metagenome / Metatranscriptome283Y
F035281Metagenome / Metatranscriptome172Y
F036210Metagenome / Metatranscriptome170Y

Sequences

Protein IDFamilyRBSSequence
Ga0114347_10027471F035281AGGAGMKNFVIAAMLVLGMVGSSYGGECVNGSCLLRSRVVNVTREVISVPVTVTRRTV
Ga0114347_100274721F008812AGGAGMIQWIGVIIALLGLAYNGVKDYQKGDIKIPQLPQKQVLTKPVYPVQYCLMAYDPNVNKVFYLHENGQWYDYAPQQRRYASTQEHYQNQGQATLGSQHGSQGGSGQHYLR*
Ga0114347_100274725F000325AGGAGMKTADGNDKLGKGCIVVSRPVGDTCPPDCDYLDNGCYAEQTEKQYKNARTAGFANVITEKHKIRAMILDAKRREKSIRWHERGDWFLNGELDLEYVANVTWACESILADGDTLPNMWFYTHIYDSRLVSLEKYMAVYASVHDDNDMNEAKSKGFKLFAWCDSDMKIAPKRPKHKAKADLWRQALPKLVVLNAAKFVVCPEIRRGRSVITCTGTKDSISCDMCVKGLANVLFPAH*
Ga0114347_100274728F006543N/ALEIVTLFGESKMKKFSFAVDIVADTLDRDTVVESIRECLSGSLPGDVHANVKAGEVKAFSEQGYKVWRARVTGVTAEQAGDAHNAKVEAEATA*
Ga0114347_100274729F012108AGGAMINLQLSVREAMNLATNCNLEIYERIVTAFEVALGVNQRCTVTITGGMTLDNRIKCIKAIRHHSGWDLKTAKDWTDVLVGGWKYDKFVPSSVGAKQSITLKTPEAAENLLRDLVEEGCEGFLS*
Ga0114347_10027473F036210GAGGMKTRYLNARNRSEIQRKYIDHILGTLDFMEIKDRLRDYFELEKDKESNASLEAEIRQEAPEVLVDNWEDLDEPSTLTKKEEFHHA*

 ⦗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.