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 Ga0307507_10002919

Scaffold Ga0307507_10002919


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10002919 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 7_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)34409
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (20.00%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (28.57%)
Associated Families7

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta(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: Oregon
CoordinatesLat. (o)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000630Metagenome971Y
F000746Metagenome908Y
F002220Metagenome581Y
F002555Metagenome548Y
F006298Metagenome376Y
F019457Metagenome229Y
F060493Metagenome132Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100029191F000746N/AMIITGLIKYIVAVVGNIEEGIINVNYKATVEVLVEVHFKVIARRSATFIRSQIAS
Ga0307507_1000291910F002555AGTAGMLGIFKDEDKEEGDSITDALSTILQLLREESAEASWLI
Ga0307507_1000291911F000630GAGMGVKGIEANLGKRNLSRSIVNAIGGKYLRALKRPNKGRKYSGNTLKNRNNRTKRLALLGRCPSR
Ga0307507_1000291912F060493N/AMRRDFIVLILSLDISGAYNNILYKRLLYILRVKGFLE
Ga0307507_100029194F019457N/ALGDDQFLALKEDELIKVNLIVKPKEKLNLTTLLLFNGYTLSLNKDSIALRQKG
Ga0307507_100029196F006298N/AMERRLVIKNSDGLYAIYLTILSKVLVGRVVLNFYIHKKLFSLINLTLKIFFAFILNQEALEVGYSNFLIFNVLCALAKLIIYLLLSIKGVSS
Ga0307507_100029198F002220N/AMESLFRERMHLLKSNSVVELSFSFSFAIRFTFTSLSSLRAENWLSPKIIILLVYMPIILNGVPMVVIRKYRLNVKVVIKSFSL
 ⦗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.