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 Ga0184646_1284778

Scaffold Ga0184646_1284778


Overview

Basic Information
Taxon OID3300019259 Open in IMG/M
Scaffold IDGa0184646_1284778 Open in IMG/M
Source Dataset NameMetatranscriptome of groundwater sediment microbial communities from an aquifer in East River, Colorado, USA - PLM1_100 (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1525
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Sediment → Unclassified → Groundwater Sediment → Soil And Sediment Microbial Communities From The East River, Co, Usa

Source Dataset Sampling Location
Location NameUSA: East River, Colorado
CoordinatesLat. (o)38.9195Long. (o)-106.9496Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003507Metagenome / Metatranscriptome482Y
F009760Metagenome / Metatranscriptome313Y
F042786Metagenome / Metatranscriptome157Y

Sequences

Protein IDFamilyRBSSequence
Ga0184646_12847781F009760AGGAGMQLLRYLQPWLTGRGPCLQMADVVPETHPLRPWAETLPWAVLVAAVDRSWAQRVPTPTTRGRPPVSTRVLLALGLLTHALACADEQLCRRWRTDLAVM
Ga0184646_12847782F003507AGGAGVLPEVLAHFRSRLDAPLREELLAIQAATAMADGLVSPAHLVVDTFPREQGSPRVHEAATLDTAPKKSSRSSRPSPRRAPPGARRCRRTRSTSSMTSRR
Ga0184646_12847783F042786GAGMRRFGRPCRGRGQVLVTRVRRTETPLLAMGEQGLPLARAAQECVHGATQLSEDPRARLNTQLTAALEAHHRIEHPSRRLTPGKALSHGKIVNASDPTMAPMCKGTSHCPAQFGRTPGMIAEPAAGFIFALHLPVGHPSDASDVEPLVDHVAQAIARVRTRPTPAIHALAGDLALNDAAWREALHARGMLTVGIPKTIDPLPPSPTPEDVLRILDEADLHRIRT
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