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 Ga0208091_1000476

Scaffold Ga0208091_1000476


Overview

Basic Information
Taxon OID3300020506 Open in IMG/M
Scaffold IDGa0208091_1000476 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 26OCT2012 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)7301
Total Scaffold Genes20 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (80.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
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?
F001176Metagenome / Metatranscriptome756Y
F001280Metagenome / Metatranscriptome732Y
F017101Metagenome / Metatranscriptome242Y
F076961Metagenome / Metatranscriptome117Y

Sequences

Protein IDFamilyRBSSequence
Ga0208091_100047610F001280AGGAGMCYECGCESVGSETGIAKIPGGILDVTTDGEAGLTLNMTATPEQRERFINE
Ga0208091_100047612F076961N/AVEDYIDNSVRRDIIKDISNLELPDDWKPNQVIDYIIRKIDKK
Ga0208091_100047617F017101GGAGVSNNQVTVLESIVEDVATALFQKWGNALPEDQRTEEALIALSKNAKETTYFVVQMFMDKFNQEADALKSQD
Ga0208091_10004769F001176GAGMSENGTGMDTPPNNEPSGAVTSQEVGRKNPSQGKFKSGFQSKKPPTRIDTNKHGIRRETSLVPKRSGRPKKV
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