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 Ga0137415_10007516

Scaffold Ga0137415_10007516


Overview

Basic Information
Taxon OID3300028536 Open in IMG/M
Scaffold IDGa0137415_10007516 Open in IMG/M
Source Dataset NameVadose zone soil fungal communities from Angelo Coast Range Reserve, California, USA - CZODoug3_1_1_16fungal (Hybrid Assembly)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10791
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (64.29%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Archaea(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002514Metagenome / Metatranscriptome552Y
F009257Metagenome320N
F035435Metagenome172N
F046931Metagenome150Y

Sequences

Protein IDFamilyRBSSequence
Ga0137415_100075161F035435GAGGVLDPIVLPTLYFIAVLELIFQAGVVFYAYKVTRITGSFRAWTMIIAAFSLLTIQSVVGLVLTLSLPTDQIANLIGSVGETTTILSSMATAVAGALLFLGIFGLAKRFENQAKPSA
Ga0137415_1000751612F009257GGAGGLSMSDSGPVLSDMEEGGDGMAKYARMVLEFIKRDVFEDRKQVSVEEVVTLIAALTDISVSLLAKFRKDQVDPAKATEVGRDVFKYMVGRLGFDMDKLGKSNIYV
Ga0137415_1000751613F046931AGAAGGMPKPSLTTTAISILSFILGAWLLFDGTRKLVTGYYTGEQTMGLGPWATIVTSIGVQPADMAFPFLFLGVIWIVNGIIVLLGANNRYERAIAISIVTLFYALPGTLVGAVTILFSLRERKLLGRAG
Ga0137415_100075163F002514AGGAGLRDRDVMNLLDQIELYVLGIRGERVAQKDYWLFIYNSMKSGLLMTKAMEKHLQYKLKELAMQNSQR
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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