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 Ga0207935_1000106

Scaffold Ga0207935_1000106


Overview

Basic Information
Taxon OID3300020516 Open in IMG/M
Scaffold IDGa0207935_1000106 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 30AUG2010 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)22591
Total Scaffold Genes40 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)36 (90.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Epilimnion → 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?
F039989Metagenome162Y
F054796Metagenome139N
F062553Metagenome / Metatranscriptome130N
F066715Metagenome126Y

Sequences

Protein IDFamilyRBSSequence
Ga0207935_100010623F039989GGAGGVRFLLAFCVVLVGCVATLPGDNGVTADLACETARMVVQLRNEIAPSPASDRCENCDGTGKIGDGRIVMPCPICKGTGKK
Ga0207935_100010624F062553AGGAMTLPELQAHVWDRLPTLQRTVAGRRIVSRIVKSAVRGWPVPVLEQCNADETQVVAKHYTKQIERAARHEFGMGIILTLVLGALVQEVVKLLVQWWLARQENRTQMRLLMREARNYD
Ga0207935_100010628F066715AGGAGMADSIISRKYRDFDITLHTATSLATTLDMRDVAGAVVSFGTMNTNASTLQMWVSPSSTGTFRRLYKSDGSVADLTLAASSTDGRAYSLPDEVFGTEYLKIVSATTNSTGTSGVVMFKS
Ga0207935_10001068F054796AGGTGGMSRRKPSPQAVADVCLASAWRDEIDDESRILLEQAHDTIVSLMARLVATSKILEVVEAEMASHKFPLLGDEDPGMAL

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