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 Ga0208028_100217

Scaffold Ga0208028_100217


Overview

Basic Information
Taxon OID3300026625 Open in IMG/M
Scaffold IDGa0208028_100217 Open in IMG/M
Source Dataset NameExtremophilic microbial mat communities from Yellowstone National Park, USA - BED_Mat_virus_6_15 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3779
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Thermal Springs → Hot (42-90C) → Unclassified → Hot Spring → Extremophilic Microbial Mat Communities From Usa And Mexico

Source Dataset Sampling Location
Location NameYellowstone National Park, USA
CoordinatesLat. (o)44.7315Long. (o)-110.7113Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F008949Metagenome / Metatranscriptome325Y
F011097Metagenome / Metatranscriptome295Y
F023140Metagenome / Metatranscriptome211Y
F076262Metagenome / Metatranscriptome118N

Sequences

Protein IDFamilyRBSSequence
Ga0208028_1002172F011097GGAGGMIRDVPLYTSGGTDPFTDLAVGGSPITGSGGNGQLLRFHPNYARLLILITGLSGTSPSIQFTVGAFYGSNFYTLPPITSPQYVYIIGNENKTIITYLNTSGQVLQQVELPYNIFLNGVQVNWSVAGTSPSITAYIHFEFEDEEEDEE
Ga0208028_1002173F008949AGGAGGMSSQIVTLGTQTITPEVQDLGNTYYIEFQVNITKYLNNPVNQTIDVKFICNKYKQVVVPSNPLSPPTVQTVQKTIQECVDEWFDQHKSVYEVA
Ga0208028_1002174F076262AGGTGGMSFNPVIEGSYTLAAPQTVSVAASSSSSVSISFTPLGAGELYVYITLPSGVTASISIGGQSVSLANGSNQFVIPANTPIGNITINNSNTAAVSVVVWALFIEVA
Ga0208028_1002175F023140N/ALHERILISNVFIGLATVPIYIFLKSFPFFIVFGAGILTTLTVLILFFYFLGAKFVGTWAILQKFAVTLPTSFVLAHLVKHLPSDLFLDYIILFFVGYVISTPLIFLTYNVTRWLYGKKR
 ⦗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.