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 Ga0209131_1003114

Scaffold Ga0209131_1003114


Overview

Basic Information
Taxon OID3300026320 Open in IMG/M
Scaffold IDGa0209131_1003114 Open in IMG/M
Source Dataset NameGrasslands soil microbial communities from the Angelo Coastal Reserve, California, USA - Sample 9_17_2013_40cm (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)11098
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (84.62%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Grasslands → Grasslands Soil → Grasslands Soil Microbial Communities From The Angelo Coastal Reserve, California, Usa

Source Dataset Sampling Location
Location NameLaytonville, California, USA
CoordinatesLat. (o)39.7392Long. (o)-123.6308Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003278Metagenome / Metatranscriptome496Y
F006902Metagenome / Metatranscriptome362Y
F077604Metagenome117Y
F081559Metagenome / Metatranscriptome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0209131_10031141F081559GAGMLTNQEPDWNIDDLSDPEIYAAIRYLEPGLTNADQLDAEDQDKDNVMVICVCLYTLLLGCLVFLWFYWR
Ga0209131_10031144F077604AGGAGMNFKLVTLFAVLVFASVGIVGVAHAQDDETVKANIPFDFYAGKQKMPAGYYRIGIDLGTEMISVTDKSGKHKVFLMGTPADDGDGKWLLVFKHSGDVYALEELKSDAFNWAFWTWMPVPPMESRNALPRVEVALNR
Ga0209131_10031147F003278GGAGMLKISLVDNARQRRVIVEGKLVAPWVAELRNACQEARADLDGRELVVEMKCVTTISQEGENVILELINGGIRFRCHGMLSKHVVKELTRRASRNPGTRAGD
Ga0209131_10031149F006902GGAGGMWKITTRGFTLQEVLIMAAMNLLTSADTAAKREKWASPK
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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