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 Ga0207939_1008028

Scaffold Ga0207939_1008028


Overview

Basic Information
Taxon OID3300020536 Open in IMG/M
Scaffold IDGa0207939_1008028 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 02JUN2012 deep hole epilimnion (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1755
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (87.50%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Unclassified → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa

Source Dataset Sampling Location
Location NameLake Mendota, Madison, Wisconsin, USA
CoordinatesLat. (o)43.098333Long. (o)-89.405278Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F023834Metagenome208Y
F026864Metagenome196Y
F055450Metagenome / Metatranscriptome138Y
F073256Metagenome120Y

Sequences

Protein IDFamilyRBSSequence
Ga0207939_10080281F055450GGAGGMEAENKRLRGAANQAVRQRNYRRARDRALVRRAHLYPDTYKQLLEMEKKTDEQEGKTWLDLSGNTVPVVGVRIRTADGRGAATLKENIHRSTDEGNDGGEA
Ga0207939_10080283F023834GAGGMSEPTVEYWRAKAELCRDLALAQIIDGDEKMEKEAGMNLMRMTYALSMVDTFNEGGEDDK
Ga0207939_10080285F026864AGGAGMSEQEKTAQFVFTVVIAPANKQYDVELWDFAGTEPKQLSTGGGSNWRTALGEALSKIELPTDKVEKTINDVIKEGVEDEGV
Ga0207939_10080287F073256GGCGGMKLQEVDTIQELKEWVEENMPGARLTEDSAGDIVIHTGLISTMGGYLHERGGEDGE
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