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_10000315

Scaffold Ga0307514_10000315


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000315 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)115788
Total Scaffold Genes129 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)94 (72.87%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
Not Available(Source: )

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
F016905Metagenome / Metatranscriptome243Y
F019765Metagenome227Y
F047400Metagenome149Y
F089625Metagenome / Metatranscriptome108Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_100003151F019765AGGMLQVMDNMEAHCIFYIKVGMFTYPEQSKISNLTINKSGIVKLTVQHDLIVSISFM
Ga0307514_10000315118F016905GAGMPGHQYTPAEYALQKIVESFGNLLSELAEHHLTHTYAVVFHFCEIENIDYLVLRNLNTGTLPFEEFCEEWLFEGEV
Ga0307514_1000031527F089625GAGMPLGFATGPSLNHVERQPMKSKQDDNNSGMQFMLNGQYIEMRVNGVSTICGLVSTVFHQ
Ga0307514_1000031530F004778N/AVFDRFELTDGHLLGITTDNASSNYSMTCELQSTLEASGIERLALRNHIPCMAHVIQLALGAFMSSLGVKGRTKSWEAHERDQQFGENESIDIAKSQRLRKEGNARINKVSAMRSGLAKIIEKVHIS
Ga0307514_1000031590F047400GGAMNTFVLLPLPESMAQRCAGKHDQWQGYMTVLVVIRGIIKSICILTAVIRPMIKWDVDKPRDCFRQEVKWTLAIH
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