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_10029187

Scaffold Ga0222718_10029187


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10029187 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)3709
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (92.86%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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?
F000896Metagenome / Metatranscriptome845Y
F003357Metagenome / Metatranscriptome492N
F029115Metagenome / Metatranscriptome189N

Sequences

Protein IDFamilyRBSSequence
Ga0222718_1002918713F000896GGAGMTNKINLVINLSILALLIYLAVSVKQLQDKVFPDPNIMIPLMSYDNSKQELEYNIREFLNSILEQAIEEQENQ
Ga0222718_100291878F003357AGGAGGMTRNSWIVKQIYTDAKNNLGWLFKGILLAGGFIAGIKIMMFFSVPKEILFPVMWIAFILVMLYKWYSMKYDWKKDDKAYDRASKRYMKKLKGGK
Ga0222718_100291879F029115GGAGMLDKIEKRILDFTRLTGLAERITMSHGTLYVTLHQPEQCDHFHKVIRTFYVDNINQDGGVNMYAVGDEFAFDFVPEDREAPVFVEPYSDEKYSGKEIMDNTEMGIWSEFAEEEMLANIDTALDLENDAKEGR
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