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 Ga0224906_1003255

Scaffold Ga0224906_1003255


Overview

Basic Information
Taxon OID3300022074 Open in IMG/M
Scaffold IDGa0224906_1003255 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 56 SPOT_SRF_2014-09-10 (v2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7226
Total Scaffold Genes19 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)18 (94.74%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Strait → Unclassified → Seawater → Marine Viral Communities From The Oligotrophic San Pedro Time Series (Spot) Site, San Pedro Channel, Ca, Usa

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)33.55Long. (o)-118.4Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000896Metagenome / Metatranscriptome845Y
F033113Metagenome / Metatranscriptome178Y
F037814Metagenome / Metatranscriptome167N

Sequences

Protein IDFamilyRBSSequence
Ga0224906_100325511F000896AGGAGMTNKINLVINLSILALLIYLAVSVKTIQDKVFPDPNIMIPMMGYDNSAELRYNIQELLNNVLKDAINQEEKQ
Ga0224906_10032556F037814AGGGGGMEISLAISIVMLLVIIVSFTFMLKELKECQKIIKKMQRRSRKYIREVVSND
Ga0224906_10032557F033113AGGAGMLKTIEKKIQSFVQGIGGIQRQEIVHGTLYVKLDNDRDCDFIHTEIRKFYKEFINPEGGVNMYAVGDEFAFDFVPTDRETPVFSDDPESLYGIWSEFAEEELENNMPDDVDTIMNLEAESKRGK
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