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 Ga0222717_10000348

Scaffold Ga0222717_10000348


Overview

Basic Information
Taxon OID3300021957 Open in IMG/M
Scaffold IDGa0222717_10000348 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_18D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)40015
Total Scaffold Genes61 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (26.23%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (33.33%)
Associated Families6

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)37.0966Long. (o)-122.4216Alt. (m)Depth (m)38
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F013533Metagenome / Metatranscriptome270Y
F016009Metagenome / Metatranscriptome250Y
F024656Metagenome / Metatranscriptome205Y
F036588Metagenome / Metatranscriptome169Y
F078790Metagenome / Metatranscriptome116N
F087229Metagenome / Metatranscriptome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0222717_1000034813F036588GGTGGMLSPMYWVKRKIQQIKRVIDFLPLIWNGFDFDYRYAIDIFKKQLERIATDMETNGRLECSDVNAQKIRTAIRLMDKVYEEEYSTEYMSTIDKLYGTTHYDFEELEEMDKNGDPYYRLVHWNEGAVDDKHQKEIDGVRHEMMLLSQDKQKRAHKLLWDYIEHNIQRWWD
Ga0222717_1000034817F078790N/AMSKVIGTKYGIEITKPWNQKMYDWNELVGKLIKIDLYNKLEEFYKKGDKSGMNKIANSFGPSYGEGYDVDAVFDGVFDDITQLQNYQINEELEWLVKDGLIKEPEFGFVGYDK
Ga0222717_1000034818F016009N/AMRITDNWTKEMRRYRIIEHTLRGESVYVVEWNDRWFLGLWGNWHEKFHSTSIEEAIKKIHRLVHLKLNRK
Ga0222717_1000034827F087229AGTAGMNNIYNYITDDDLVKDPLITKEILERLTPRQNKMLDEGRLLFNPVNGDMIVPMMTQNGIAKIIVNIF
Ga0222717_1000034832F024656N/AMSKQTKDWMEKLVENYRIPTEEETQKKAEPKKMLNDSQLKKILSKD
Ga0222717_100003485F013533N/AMFNAEDIKTVEGFRRNFGEPKEGMLLDLTQEFIEAYHRHGVDSFELVDGFGLDWVQLLMNYNEDVEEYELCAIFRDLINDYIKTKIK
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