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 Ga0075300_1005565

Scaffold Ga0075300_1005565


Overview

Basic Information
Taxon OID3300005876 Open in IMG/M
Scaffold IDGa0075300_1005565 Open in IMG/M
Source Dataset NameRice paddy soil microbial communities from Twitchell Island, California, USA - SF_Rice_25C_80N_401
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1281
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Wetlands → Unclassified → Rice Paddy Soil → Natural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration

Source Dataset Sampling Location
Location NameUSA: Twitchell Island, California
CoordinatesLat. (o)38.1087Long. (o)-121.653Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F026525Metagenome / Metatranscriptome197Y
F104936Metagenome100N

Sequences

Protein IDFamilyRBSSequence
Ga0075300_10055651F026525N/AFKLTSVTLDTARVTVGRTCRFKGTLVFAVPRAETLAVTWSGVPEQALIYGWPADLGPFAGVGAVRVGDSLAGEILFDERLNVQVPHGVTARFLAGRARD*
Ga0075300_10055652F104936GGAMAAYGSMLGIALGGFTWVVVAGNLIHKPVIGLGGALAGAAVWWIGGRALLRYAARRATVLGIVILFVVLVDWAFLGAVLPRIPEGGSLYLGTSRSAYTMLQPILLVGGLVGTALVLWDLLGQRGRS*
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