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 Ga0334991_0013280

Scaffold Ga0334991_0013280


Overview

Basic Information
Taxon OID3300034013 Open in IMG/M
Scaffold IDGa0334991_0013280 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME07Jun2018-rr0034
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5112
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (47.06%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Lake Mendota, Crystal Bog Lake, And Trout Bog Lake In Wisconsin, United States

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)43.0995Long. (o)-89.4045Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F013412Metagenome / Metatranscriptome271N
F029732Metagenome / Metatranscriptome187Y
F039136Metagenome164N
F058715Metagenome134N
F059002Metagenome134Y

Sequences

Protein IDFamilyRBSSequence
Ga0334991_0013280_1110_1292F029732AGGMKYLSKTKPTVAVEFIAEAQLRIGETKRLCVIYQRGEIFFVRPKAEFFDKFVLDEPQIQT
Ga0334991_0013280_1289_1564F059002N/AMNILNEIKNGISRLLGVHKTLETKEAPKTLKPKRSPKRGRGRPKGLKIPREIVDAVLQADKSVSNKQLAAKYRVSCFWIWSVRSKKLRLKR
Ga0334991_0013280_1731_1973F058715GGAGGVSLLEKLGLSKQSMERMLGAVAPLKKTKIKRYRRYETVPADIRKAILEEHSSYTCRELAKKYGVSASTIWDIRESKSKIE
Ga0334991_0013280_2932_3186F039136N/AMTIEIKYTASVYTPAGWRGVTITAKATKTSEKMALVVEVLEINGESPKSSMSRTGANRQRFNGRGISCREVGAKKRLSACEIVN
Ga0334991_0013280_4072_4401F013412GAGMRHLWARGFGRLHSDAEIITTDDGKQFLIAVIEFEKRTLGNGKPYAQRVQFRSFDPDDMDAVLLLTEGTHVLFDGDCDAVADKSSTGWWYANPRITGRIHEILPSGHES
 ⦗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.