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 Ga0105242_10023536

Scaffold Ga0105242_10023536


Overview

Basic Information
Taxon OID3300009176 Open in IMG/M
Scaffold IDGa0105242_10023536 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS M2-4 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4853
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameMichigan, USA
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004532Metagenome / Metatranscriptome434Y
F019498Metagenome229Y
F025476Metagenome / Metatranscriptome201N

Sequences

Protein IDFamilyRBSSequence
Ga0105242_100235362F019498N/AMEADFRSLLLAAVTSIAMLVQLPLALSQEKERNATVGSAETARIWFGANYGRRCATAGPPIFNLISKPSLGEVSTELADYTVPTGQNCAGRTYTGLRIWYKAGSIVGTDTFKYTIEFPHEPSNPTPSKGPQPVSVTVVVQ*
Ga0105242_100235364F004532GAGMEPGEVMLVPGGIAHRSIGRNDSLRYFCQSHEAVDYVMNDDQYTSETSFEVKRIGGPNWTAPRGADQQAKGPVLEKMHFWDDRPDDQTLVERDYESLVGIAGIGRGKPGSLVRKLRAFDHFTAIVGKGREDAGTQPLMESANMRIRTYNMQDEQFAFHRALRSEEVRIQFRGDALDLSEFENVEVFPGEITIIPLGISHSVISIPPEDENFLRLNFYSKVRWRVPIDPSKHCFESRFEIKTTVHKRAEWREKLAAAR*
Ga0105242_100235365F025476AGGAGGMYRRPETKAAEEKVYKQKQIGEFMTTWKDFPRPGLDGWAERQKAGLMGTAKSTHYTPRFRPFDMLSTANQSLVILENEYHRIGVESVVGVQDSFRRYVDSDMVYFQFCGNSTVEPSSAFTRWSPAK*
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