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 Ga0209648_10004215

Scaffold Ga0209648_10004215


Overview

Basic Information
Taxon OID3300026551 Open in IMG/M
Scaffold IDGa0209648_10004215 Open in IMG/M
Source Dataset NameGrasslands soil microbial communities from the Angelo Coastal Reserve, California, USA - Sample 9_17_2013_115cm (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)12180
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (38.89%)
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
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)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F007548Metagenome349Y
F021936Metagenome / Metatranscriptome216Y
F093474Metagenome / Metatranscriptome106N

Sequences

Protein IDFamilyRBSSequence
Ga0209648_1000421515F021936AGGAGMEGAGATRSIEPAVRRAVALVTVLICSTAGVAGGQVSGRSVDQDLRLEWTAAEDRLGRPIVSGYVYNARAGTYATAMRLRVEALDASGQAVGATTGFVFGDVPPSGRSYFEIKAPAKAGSYRVTIQGFSWRAYGAGGG
Ga0209648_1000421518F007548N/AMDAATPSPITAETQVNDVLARYPATAPVFTQGRRLYVDQLHDLYARFPGLTVGDFAGRNDLDLAAVLLQVNAIAESEDAARQPATRAQASDEARPGQFSLTLGYTASHRPREDSAPDSVSVVA
Ga0209648_100042159F093474AGGAGGMKRIAGYAAGVMATFLMVGPGFAAESVRDSTSAEKSGKLAMPHRVTGNVVSVDESARTFTVQDSKGKDYVLTADPSLGSQLSEVKAGGHVKVSYKKNSSGQMIATKIAPADSMKSGSR
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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