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 Ga0307514_10000580

Scaffold Ga0307514_10000580


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000580 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 16_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)68897
Total Scaffold Genes79 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)49 (62.03%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → Pezizomycetes → Pezizales(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Roots → Unclassified → Unclassified → Ectomycorrhiza → Soil And Ectomycorrhiza Microbial Communities From Populus Trichocarpa Stands In Riparian Zones In The Pacific Northwest, United States

Source Dataset Sampling Location
Location NameUSA: Washington
CoordinatesLat. (o)46.6253Long. (o)-120.532Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004778Metagenome423Y
F004891Metagenome / Metatranscriptome419Y
F006048Metagenome382Y
F078047Metagenome / Metatranscriptome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_1000058021F004778AGGMDLLDCFQLTDGHLLGITPDNSYSNYSIKHELQSTLEAPGIEWPALRNHTPRMDHVKQLPLGAFMSSFGVTVRTKSCDTHECDQQFGENESIDMGKSERLRTEGNARNNMVSAMRPGLAKITEKVCIS
Ga0307514_1000058033F078047AGGAGMQWLDGCSRICVVGGYFSGTLEGGRMGDNLEFFGEVLGLFLVFCLFYYYIIHIHG
Ga0307514_1000058062F078047AGGAVGGYFSDTLKGGWMGDNLEFFGQVLGLFFVFCLFYYYIIHIHA
Ga0307514_1000058078F006048AGGAGMLNQRPTVDITRSNRYQVCAQVDKVKSHFIQSVRDNIAELYDLHRFESAAERLEFIDSLLADNRYLFPVAERVKGGVRGPNPMQRESKADNEWLASTVLPGGGNPAVYLHQILSSGE
Ga0307514_1000058079F004891GGAMIARASGFGMGVGRFSRSLRGVGVLAMPDAGLDTTRHVESVSIVPLGAGVLRLLVPGVAVGVIIDCRCVVDGVEATC
 ⦗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.