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 Ga0335029_0022008

Scaffold Ga0335029_0022008


Overview

Basic Information
Taxon OID3300034102 Open in IMG/M
Scaffold IDGa0335029_0022008 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME17Jul2002-rr0112
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4841
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (86.67%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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?
F000852Metagenome / Metatranscriptome860Y
F001019Metagenome / Metatranscriptome804Y
F007470Metagenome / Metatranscriptome350Y
F007644Metagenome / Metatranscriptome347Y
F009685Metagenome / Metatranscriptome314Y
F020171Metagenome / Metatranscriptome225Y

Sequences

Protein IDFamilyRBSSequence
Ga0335029_0022008_131_286F007470AGGAGMDYQDGFEDGVKFAREVIINNIRLWAETSDDGQVLDEVADQIEFGTVDYDL
Ga0335029_0022008_1970_2182F020171AGGCGGMEQFIDTLAEHITGAIQQEISEDLFDQWSNKNLDEGSDYAEHMFMQYASDDLKQQYNEYYGYIEGDEFLL
Ga0335029_0022008_2361_2513F007644GGAGMKLHLISLEQDLEENPASIHVVDIEGQIYATKHLLSVATDIMNSSNERYE
Ga0335029_0022008_2803_3027F001019AGGAMSYEPSLEILEVEYSCSPGGVDLFEVYDKTDIPLAMPIYETESLTDAVLYCYNLGKDFTVRTLAEWNERELSHA
Ga0335029_0022008_3369_3506F009685AGGAGGMSDQYIDEVLNKAQKLLWGGSETENIEAHNLIAKLIKDRMEDAEV
Ga0335029_0022008_3810_3953F000852GGAMATKREYLKSQGITVGARGRFSGAAKVALQEAEKQGLQFTKETAPKK
 ⦗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.