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 Ga0307507_10000420

Scaffold Ga0307507_10000420


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000420 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)88525
Total Scaffold Genes33 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (45.45%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families4

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
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000630Metagenome971Y
F002220Metagenome581Y
F003457Metagenome485Y
F078050Metagenome / Metatranscriptome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000042010F000630N/AMLERYIGVKGTEANLGKRNLSYSIVNAIGGKYLRAPRRPNKGRKYNGNTLKNRDNRTKRLALLGRYPSR
Ga0307507_1000042015F003457AGTAGGVCFFSAKAFLISAIVIVKIVCLGFLVSCANRVALIMWIFKVLSELKLSLVSYIVSCLGLSLVLGTELVLNLGLGSLSILFIVEY
Ga0307507_100004202F002220AGGMHPLKSNSVVKLSFSFGFTIRFAFTSLSSLRAKNWLSPKIIILSVYILIILNRVPIVVIKKHRLNIKVVIKSFSL
Ga0307507_1000042025F078050N/AVDIKEWLNKEKQLKDLREKVRARRKDLDDIMVQLTH
Ga0307507_100004205F000630GAGMGVKGIEANLGKRNPSYSIVNAIRGKHLRALRRPNKGRKYNSNTLKNRDNRTKRLALLGRCSSRQPKMRI

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