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_10000432

Scaffold Ga0307514_10000432


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000432 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)91509
Total Scaffold Genes120 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)75 (62.50%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina(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?
F004891Metagenome / Metatranscriptome419Y
F046750Metagenome150Y
F047400Metagenome149Y
F062316Metagenome130Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_1000043215F047400GGAMNNFVLLPLQESVVQCGAGKHDKWRGYMTVLVVNHEMMKSISTLTVVIRPMIKFDVDKQWDCF
Ga0307514_1000043263F046750GAGVAYVAQIQHRESQMLPTNGQCPLHSLAAVIPRCICIKLYHWANNRGRHADRFHNSMIHNKDVHIPLPLIMFTCTDFCHALLEWQKNKRIHPKAPKSKLKADRPDYLNYFNYNNDGGTNTFSCGAMGCKLLTSPGIADTYTFLRNTWNTLPESYQQRVYTNPLATVQCQIQQVENPTPTVVISVEAAHVYNAILLHYFTSKVALEQPEIGSIHPNIPIENNCTDN
Ga0307514_1000043264F004891GGAMIVWAAGLEVQVGRFSRLLRGVGVIAMPEVGLDTMRRVEVLLGAGVLRLLVPGMAVGVFIDCRCVVDRVKVTRSMISAKRELFSEDRGVEY
Ga0307514_1000043280F062316GGAVMIALTNYLDLPCLIFASSHINHHIGMHQDDSNCTSRMNWFYLTRTPCVVFEPEPLNAFESIEDILAANFEEEPLEAYFCELLDIPSSWNIYWTDSAREGGGLDIYRPVFGQRWTNYHGLHLGLFTNCDPEEVCDCEGHNCVVAQSTVGHAASAATIAKSLRSALIVIVPPTPTHYKIDTYNWHW
 ⦗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.