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 Ga0307515_10000542

Scaffold Ga0307515_10000542


Overview

Basic Information
Taxon OID3300028794 Open in IMG/M
Scaffold IDGa0307515_10000542 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 17_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)88944
Total Scaffold Genes96 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)62 (64.58%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya(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)46.6992Long. (o)-120.899Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006048Metagenome382Y
F010438Metagenome303Y
F042672Metagenome157Y
F047400Metagenome149Y
F063295Metagenome / Metatranscriptome129Y

Sequences

Protein IDFamilyRBSSequence
Ga0307515_1000054224F042672AGAAGMLCPQAEEYAVVIPTQYNDPHGWADFVNRFIQVVRQTVKMHIVHVRAIVRLAHLVQEIAASHRINSVWLVNNYVHLDTHWTVY
Ga0307515_1000054232F063295N/ALKITLQNEDGAFIEFCSALALTTIPEYSGNLDPVSKFVQVRKAPAVIALQVFSVGNIVDCVHVIAQKATSSMIGDGRNERWIVNSHPDLATWNDLHN
Ga0307515_1000054273F010438AGGMQLYMWNRQLFMSACDLEMVSYATRHVAKALAEGPHWQIIEKYWNTAMQENNIWSIAYEGRTEEILKEVC
Ga0307515_1000054274F006048AGGAGMLKQRPRFDITCSNWYQVRAQVDKVKFHFIQSARENIAELYDLHHFESATERLEFIDPLLADNEYHFPVAEHVEGGVRGPNPTQREWKASNEWPASTSLPGGNNLWFYLHQLVSSGK
Ga0307515_1000054275F047400GGAMNSIVRLPLHESMALCGAGKHDQWRGYMTVLVVNHRIIKSISILTVVICLMIQVDVDKTRDCFRQEVKWTLAIR
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