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 Ga0222718_10011325

Scaffold Ga0222718_10011325


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10011325 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_27D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6604
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (45.45%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)37.6183Long. (o)-122.2916Alt. (m)Depth (m)12
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003169Metagenome / Metatranscriptome504Y
F003920Metagenome / Metatranscriptome462Y
F004715Metagenome / Metatranscriptome427Y

Sequences

Protein IDFamilyRBSSequence
Ga0222718_1001132510F003169GGAGGVYTVEHTGEPYTHSGRVRTVGGRCREEKRKKSDHGRIAHYEHGGKTGRAMIKYPLYKKNAQRKNTLTYPGLTTVSLDRIITYMKYHYVLAYRGQHCHRYYVQLDPESADILHDSLQQRYDLVQVCEVKDSEIESHLLITPAP
Ga0222718_100113257F004715AGGAMIYTEQEHEWLSRPGKKRVSNQTADGVAPQEEDDRLWQRCWGIKTTIEVDGKSYVVPIQL
Ga0222718_100113259F003920N/AMLVRTVILYVAMTVCAVAFHENTFAVWELREDLQTRIMNLWELLQQLEYVTADQRAIVHEEIQHIREEIQRIVNELIQHDHSQHP
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