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_1021408

Scaffold Ga0224906_1021408


Overview

Basic Information
Taxon OID3300022074 Open in IMG/M
Scaffold IDGa0224906_1021408 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)2311
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → Viruses → unclassified viruses → Circular genetic element sp.(Source: UniRef50)

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?
F001611Metagenome / Metatranscriptome663N
F002374Metagenome / Metatranscriptome566Y
F013311Metagenome / Metatranscriptome272Y

Sequences

Protein IDFamilyRBSSequence
Ga0224906_10214081F002374N/AMDQILLYTSVILATVSFFLCCYACARVGKLLNSVKGLDWDTIASLTGDIGTIKKSIQTLNNRINGLNSPKLNDELLQYAIKNQNNVTDIRKNNIGG
Ga0224906_10214082F013311AGGAGGLAFLGDFGKFFGLGSSEQVLGDVGATVGSVFGPAGAAAGKEIGKTVGRATSNLAGDSNISPVSTADQALEQSAVSVSQRGDVPQETSTMLGTTGMPVMSAGFGMIPQAVQGIRALAPSVSKFFGGTGGAVATGFGTGIAINALSGGGMSKEKPVLTQSRRNKARVRQLVNFMGIDGAAQFLSQASGINVTANDVVQLLLRTFRNDGAYITKAQVRNLRRTTNRFKSLEKQVKEATSMTRTRRAASPRRASSTTLIKN
Ga0224906_10214083F001611AGGAGGMPLVQKTLTLAAGATSDNILANTNYEFVDGNVRLRVASAVDTAGTSATADTFLNVSVNNAEYSKDVSVPALVTGQPFGVLNGSYLNNDLLTTGSQRNRVLVRFTNDTSGTRTIRCGIFIG
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