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 Ga0334987_0000401

Scaffold Ga0334987_0000401


Overview

Basic Information
Taxon OID3300034061 Open in IMG/M
Scaffold IDGa0334987_0000401 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME02Sep2004-rr0028
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)39814
Total Scaffold Genes62 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)54 (87.10%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Lake Mendota, Crystal Bog Lake, And Trout Bog Lake In Wisconsin, United States

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)43.0995Long. (o)-89.4045Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006842Metagenome363Y
F017469Metagenome / Metatranscriptome240Y
F026822Metagenome196Y
F046192Metagenome151Y
F067515Metagenome125Y

Sequences

Protein IDFamilyRBSSequence
Ga0334987_0000401_33021_33197F026822GAGMAEPRYLSGDEYALNGVELDIVKCKECAGEYDYAQYHSYTCSDCEDKMIARERERVNG
Ga0334987_0000401_33360_33494F017469GAGGMKTICQFCGWEIRKPEWYNSYDQSYACDDCLMDQAVEREKEKAI
Ga0334987_0000401_33491_33652F006842AGGAGMREEKRMKARPAMCGDCLTFLSDCAHGADYLQDLMTSAERLIQLAKEREELTK
Ga0334987_0000401_34584_34841F046192AGGTGGMAKTFKTSTMLADNSGAVWVEAELTQAQVKRVINSYKRAGIDLTPYGSPDQVIKQVEEINAFFANDERSRSFVEAGKFQVIGVGF
Ga0334987_0000401_34920_35243F067515N/AMKYSITNETLKSRAQDIQKEFETGGASWEGVALEIARLELSLEAIKKDGLGEEIGIDLGSWDGAYCASEEDITHYDPKCCQHDYESGCPCCLGDCGDCNDVGNIQVI

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