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 Ga0080003_1014543

Scaffold Ga0080003_1014543


Overview

Basic Information
Taxon OID3300005859 Open in IMG/M
Scaffold IDGa0080003_1014543 Open in IMG/M
Source Dataset NameHot spring microbial communities from Joseph's Coat, Yellowstone National Park, USA - JC2_E (SPADES assembly)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1638
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (50.00%)
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 → Non-Marine Saline And Alkaline → Hypersaline → Microbial Mats → Hot Spring → Saline, Thermophilic Phototrophic And Chemotrophic Mat Microbial Communities From Various Locations In Usa And Mexico

Source Dataset Sampling Location
Location NameJoseph's Coat, Yellowstone National Park, Washington, USA
CoordinatesLat. (o)44.376Long. (o)-110.69Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F076263Metagenome / Metatranscriptome118Y
F080245Metagenome115N
F080247Metagenome / Metatranscriptome115Y
F081547Metagenome / Metatranscriptome114Y
F087442Metagenome / Metatranscriptome110N

Sequences

Protein IDFamilyRBSSequence
Ga0080003_10145431F080247N/AMIVWGKLIECLIDADVNYLNGELFNRQFRVKGKFLTFGNVNIFEKTIPAGLETEQTIQICSPIDATFMAYYQGMVAIMSFYFRDGDLYANISLTDPDTIKEFITMSTYYRKYGVSIPNVLDKIMYRKVPT*
Ga0080003_10145432F076263AGAAGMLSAEDLSAILDDLEDLCARLPEGVTFHPTLEIRRHFANEEATYIKFDCRNHRYILTIVREGIARTTRYSSREELFRRIFPEYMPGFTGSYTEEYGGEE*
Ga0080003_10145433F081547GGGGGMPYLRGVFINFGEETYYLSCGIVKGGSLDPETYTISNPELMMVRLGRDLYIVTSELKLLIPVEPVRVLLNSETSKVYNEAIMQGNEVRPA*
Ga0080003_10145434F087442GAGGMMKEGLVKAGNLVIDCKPCYIAGTGFTKDDIYVVSEGTVVFKWYDKIAVITVGEEGTKLNLLDIIDVRFLVERNENCMVTKL*
Ga0080003_10145435F080245N/AVIFVWSAHVTIPGFRDEIFVSPALINMYAEITEGVYEVGMFMVPHRGHSLLFLPTMVIKVDDELMKNLEQTSIEDLNTPLNTIDHVFT*
 ⦗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.