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 Ga0070716_100002318

Scaffold Ga0070716_100002318


Overview

Basic Information
Taxon OID3300006173 Open in IMG/M
Scaffold IDGa0070716_100002318 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L11-2 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8768
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (93.33%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan: Kellogg Biological Station
CoordinatesLat. (o)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F007493Metagenome / Metatranscriptome350Y
F026411Metagenome / Metatranscriptome198Y
F027294Metagenome / Metatranscriptome195Y
F041398Metagenome / Metatranscriptome160Y
F080432Metagenome115Y

Sequences

Protein IDFamilyRBSSequence
Ga0070716_10000231811F041398AGGAGMTKSRTQVAFATLVLSAAVAIFLGAVPAPFLNAGKHSLPAIQSNGAVTLIADGGDPQPPPTPLPWLV*
Ga0070716_10000231813F007493AGGTGGVIGTTTALIGAAVLLVVILVWIRGQSASRHSPAVMEDWLTGQDDITDACPPEFVSQIFSSRDFEFISQMESVDLKRLFLRERNAVALLWVQQTAAAIRRIMRRHLEASRLSADIEFKTEARILLQYGQLRLICGALFLLIGLGGLQRLQWMALRADKLTQRISNVLREFESGAQSREMDGMQSS*
Ga0070716_1000023187F026411AGGMKGREQKNSAAPMGTSPASECRAEFIFYARNQSRKLGSVEVLGDYACDFRRPDWTHRWTDWNSGRNQYLNLFLCAKHARELGLL*
Ga0070716_1000023188F027294GGAGGMRVFRGFAIVLMLTLISLGVFVLYNSMARRSAAGADSVIAGAVLFSLALTLLYYISRPTIK*
Ga0070716_1000023189F080432AGGAGGVNIQKGERWRCQNEICGSEILVTRPSRSQGGSNLRCSCGEIMKKSYAQPGLRSFESEVEARVKLEASRN*
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