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 Ga0222714_10007225

Scaffold Ga0222714_10007225


Overview

Basic Information
Taxon OID3300021961 Open in IMG/M
Scaffold IDGa0222714_10007225 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_3D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10212
Total Scaffold Genes25 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (64.00%)
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 → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.0516Long. (o)-121.88Alt. (m)Depth (m)13
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000671Metagenome / Metatranscriptome945Y
F003582Metagenome / Metatranscriptome478Y
F012975Metagenome / Metatranscriptome275Y
F039131Metagenome / Metatranscriptome164Y

Sequences

Protein IDFamilyRBSSequence
Ga0222714_1000722513F000671AGGAMEKILCYSCNKSKNKLSVKKSSLLPINLFMCESCISSKFEPRWVVILSGRQLGSDAVKDFIIKKRYIGTEISASELLV
Ga0222714_1000722516F012975AGGAMLNLTLKGVEVFMKRSQKNNQESYWDNYDLLIWKQNPGGFTSKDGMFRKNKWGIAERITVNQEGTWKLPTKYVKYFK
Ga0222714_1000722519F003582AGGMAEVEAFDEGDALDYANDIFGVDDEIKNVKVISVKEK
Ga0222714_100072253F039131N/AMDQDGVYKLEQYFENKYKKEVLEKINNFEFPDDWNPKQVIDYITYRLDRK
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