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_10000243

Scaffold Ga0307507_10000243


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000243 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)105830
Total Scaffold Genes31 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (32.26%)
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?
F000247Metagenome1464Y
F016255Metagenome248Y
F050927Metagenome144Y
F067281Metagenome125Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000024310F067281AGGMHMLSIYYIYTSSRFNSYSIKLVTLRLYNYNFLEKLIIRRVEKHFIKRLNIAALDTMSTPIRICSVYTLYIIGLSLN
Ga0307507_1000024311F000247AGGVQTNVIYIILSYKRTPYIEVARTNYLTSSLNIFADITPVPSSGVLFTHLSINKKPYYNSGLSLNKNIDLTSTSL
Ga0307507_1000024326F016255N/AMPSSIPLNTSDSYLVKKLNTRDIDDEIIKDAFKDALFFTNPLESLPRE
Ga0307507_100002437F000247AGGVYTYTIHIALNCKRTPHIEVAHTSYLAGSLNIFIGKTPVSSSNVLFARPFVDRKLYYNSGLSLNKSIDPTSTSL
Ga0307507_100002439F050927N/AMLKYPATRKEGITHFIYIAIPLLSIDADKEIVHEVIKQYILKVSNAYAKYILYLYLQ
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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