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 Ga0255071_1001690

Scaffold Ga0255071_1001690


Overview

Basic Information
Taxon OID3300027127 Open in IMG/M
Scaffold IDGa0255071_1001690 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Columbia River, Oregon, United States - Colum_Miss_RepC_8h
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4144
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (44.44%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)46.1812Long. (o)-123.1834Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001882Metagenome / Metatranscriptome622Y
F016261Metagenome / Metatranscriptome248N
F037122Metagenome168Y

Sequences

Protein IDFamilyRBSSequence
Ga0255071_10016901F016261AGGMTENIDPRTDPQFQALKHVMEQITQNKVPVRQPWELAARSTLRAIQHEIDDRNVLDDAELIDVLNQTRIEIKYLLSIITDLDERVKERDAEVSRLER
Ga0255071_10016904F001882N/AMANRAYIITQQPVVKSALAGTAEWARLACLHSAGSLWNNGTWVVRDVRNRPGTISNHARGLAMDLSYRWLNQKKLGKADGRKASLAFIVKCLENADHLGIQLVIDYAMQRSWKCDRGTWQPLPSVEQGDWYHIEIDPHVANDPIIAKQRWQAVFGVSPQVAPQSV
Ga0255071_10016909F037122N/AIQGALTTFGNAERIAARGSGSGVTINVTGGMSTSAEIGQSVLNSLLAYQRTNGPLDLQIA
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