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 Ga0137408_1275918

Scaffold Ga0137408_1275918


Overview

Basic Information
Taxon OID3300019789 Open in IMG/M
Scaffold IDGa0137408_1275918 Open in IMG/M
Source Dataset NameVadose zone soil fungal communities from Angelo Coast Range Reserve, California, USA - CZOMad2_2_16fungal (PacBio error correction)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6785
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (100.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F000517Metagenome / Metatranscriptome1061Y
F011570Metagenome / Metatranscriptome289Y
F017074Metagenome243Y
F032714Metagenome179Y
F083864Metagenome / Metatranscriptome112Y

Sequences

Protein IDFamilyRBSSequence
Ga0137408_127591810F083864AGGAGGMNAHMKSVVLGLALVTVLAGLSACAKRPMVVGGSSAPAPSAAVAPEPTR
Ga0137408_12759183F032714AGGVVLPYDTIGRILDRATAAPNAASKGRSRRAPSPLPSEASPALSESIIDALNKAKKGKANLVGPLEASDFNALSAWCRTVGLTKDGETVEAAVRASG
Ga0137408_12759184F017074GGTGGVLTYFAGMRRGKRYREEDLAAAAEHDADHRIDRVVQRYALLVRTNQTGALHGLLVAGVRNLRSSDEIRLARERATAQTGHDPLRQYSNGVNLKELIDACVFDNTSVKNDREILERFGKK
Ga0137408_12759187F000517AGGAGMRMWVALLLAVVFAVFPLSGVAGEKQIADVKELAGSWRGWVTTEMGQDRATMIVQANGNYKASTTRGSTSEGQFYLQDGKLRYRSSRTTGAAKLSEDKGKTTLAVIPEDPNYQTGRAEYERVK
Ga0137408_12759188F011570AGGCGGVIILFWWFMVVSQYPGGTLSAATQGPFGTQAQCEWGRQQVGVTTGLRGGQGVGWGLSPCWSDGR
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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