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 Ga0335000_0000871

Scaffold Ga0335000_0000871


Overview

Basic Information
Taxon OID3300034063 Open in IMG/M
Scaffold IDGa0335000_0000871 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME02Oct2008D10-rr0053
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)25971
Total Scaffold Genes65 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)24 (36.92%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

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?
F021974Metagenome / Metatranscriptome216Y
F022640Metagenome / Metatranscriptome213Y
F022879Metagenome / Metatranscriptome212Y
F078650Metagenome / Metatranscriptome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0335000_0000871_12839_13078F021974N/AMNNTIVSEIYSYHTDWKEGKVNQMWIEQIGNADCGNKYVAVAHNPRNGSTMEMSNPRTSYHETLNWVRGFCGTFCILPA
Ga0335000_0000871_13998_14132F022640AGGAMRIAFLIVTLALGLRVGNAAYATVNEYQEQQADNFCQIDPNYCK
Ga0335000_0000871_4472_4639F022879N/AMTHHVAHTNKMLFDLKEQYQAQIQRLQSKIDDQEQEIAKLKTMITLLSTERDYDC
Ga0335000_0000871_4935_5111F078650GGAGGMIFSEGTEVIYKTISGVVAFASEQSISILVSEGNHKSQDVRVVVYQSDFNQVVFADGK
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