NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0307514_10000284

Scaffold Ga0307514_10000284


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000284 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)129301
Total Scaffold Genes133 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)39 (29.32%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

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
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004778Metagenome423Y
F008227Metagenome336Y
F008531Metagenome332Y
F081952Metagenome / Metatranscriptome113Y
F088003Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_10000284114F008531AGGAMVHVIQLASGAFVTSPSVKGRTKSWEALERDQQFGENESIDIGKSQRLQKGGNARINKVSSIRAG
Ga0307514_10000284125F008227N/AMDTQPPPPGESGSNTGRLAGATXNTEILGTKQERXHKLVHRDAANVASKHMTQDAHLMIVRKTGSSKNKKQHAVGXEYILIEANGGQLTI
Ga0307514_10000284129F004778N/AVLDRFELTGGRLLGITTDNASSIYSMTCELQSTLEASGIEWPALRNHIPCMAHIIQLALGAFMRSLGVIGRTKSWEAHERDQQFGENKSIDIGMSQRLRKESNARINNVSAMRPGLAKVIEKVRIS
Ga0307514_1000028436F081952GAGGMVNAPKKNFSPLPEGKYGKSTTHSTQRRHQANKGNSGFEAERVEVLGALRSLRSKKKLAAENDGKRTS
Ga0307514_1000028480F088003N/AMAFVCTVREVEQHDVVSSVIFADEFPDKHPPEWTKMALITFEEATEAYMVEVTAEFHC
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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