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_1000035

Scaffold Ga0224906_1000035


Overview

Basic Information
Taxon OID3300022074 Open in IMG/M
Scaffold IDGa0224906_1000035 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)69581
Total Scaffold Genes109 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)89 (81.65%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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?
F008558Metagenome / Metatranscriptome331Y
F059059Metagenome / Metatranscriptome134N
F060813Metagenome132N
F089015Metagenome / Metatranscriptome109N

Sequences

Protein IDFamilyRBSSequence
Ga0224906_100003524F089015GAGGMKITAEQFVESLARLSDEEKHKAANLLVSKWKHLTKSFVGMVDAEMQDQFMIEQAEIFEMQKSAENGTKIW
Ga0224906_100003525F008558GGAGMFDNVGNPIDGWAIVKCESEKQPEIVSLHQCLGNAEEEKMVLNEMAEGTDTTFVVKNTFGCMIETT
Ga0224906_100003538F060813GAGGMTTKTVKYFVYTQTNKMGKTGEFDTAKEAIKWAKENVYAFDYVKEKKDDWEDLFFELLVGIGKGDCKYV
Ga0224906_100003566F059059N/AMAGQLTETEINIRKQTLESDLSTVKEQLNKLDAEKTNLVAQHHAISGAIQQCDLFLQDLMNNSGVVVDSDSSIPKKKKG
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