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_1020760

Scaffold Ga0224906_1020760


Overview

Basic Information
Taxon OID3300022074 Open in IMG/M
Scaffold IDGa0224906_1020760 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)2357
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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
F066838Metagenome / Metatranscriptome126Y

Sequences

Protein IDFamilyRBSSequence
Ga0224906_10207602F002374N/AMDQVLLYVSVVLASVSFFLCIYACARVGKLLNSVKGLEWDTVATLTGDIGTIKKSIQTLNNRINGLNSPKLNDELLQYAMKQQNNVHDIKKNIGG
Ga0224906_10207603F013311AGGAGGLAFLGDFGKFFNLGSSKEVLGDAGEAVGTFLGGPRGGQIGKTVGRTVARATDNLAGDSNISPASTADQALEQSAVPVSQIGGTVPAESSNIGLTGMNVQQAGFGAIPSIIGTARSVFPQIGKFIGSPGGAIATGVGTSVGLSAVTGSQMSKEKPVLTQSRRNKARVRQLVNFMGIDGAAQFLSQASGMSVSGNDVVQLLLRTFRNDGAFITKAQVRNLRRTTNRFKSLEKQVKEATSMTRTTRRPAMRRASSTTLIKN
Ga0224906_10207604F001611AGGAGMPLVQKTLTLAAGATSDNILANTNYEFVDGNVRLRVASAVDTAGTSATADTFLNVSVNNAEYSKDVSVPALTTGQPFGVLNGSYINNDLLTTGSQRNRVLVRFTNDTSATRTIRCGVFIG
Ga0224906_10207605F066838GGAGGMGQEYFINSQELESKVRSLLPSQGGAGAGFDLSASTQIIPIIDLTESAEGSNLRQDLQSSLKFNSETFNITSATNTTII
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