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 Ga0222718_10019604

Scaffold Ga0222718_10019604


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10019604 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_27D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4730
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (93.33%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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)37.6183Long. (o)-122.2916Alt. (m)Depth (m)12
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002399Metagenome / Metatranscriptome563Y
F004603Metagenome431Y
F015990Metagenome250N
F027830Metagenome / Metatranscriptome193N
F066237Metagenome127N

Sequences

Protein IDFamilyRBSSequence
Ga0222718_100196041F015990AGGAGMTGKGSGRRIEDINKIRNNWDSIFKKRDKKQITEVTIEFEMPGNPSINDINNHVEKMLKENKIVYTTITKYI
Ga0222718_1001960411F066237AGGAGGMFDVISYDANGNEDKVMANKLKQGFAKLYDNTCKECLGTGKRKITFEDCFGNPVPEKTMYLKCKCKEVL
Ga0222718_100196043F027830AGGAGGMNFDTAFGKYSAHYRDRGFGTQLPNISRTHSKTTGDGGYLLRDENDMHIAYITKDGKVEA
Ga0222718_100196044F004603AGGAMIFSININGNIVDWCYNLDCQEKQFHRTWIPKLSDIQIITKNLGDLTVSQVRKIILEDIQPDIQMVRDHNNKVARDRRQRL
Ga0222718_100196045F002399GGAGGMALKNKSHKSILGQMRKKYGLKDNVDPKKAEIAMTPDDWKIFSEALTFPNGKPSKREDK
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