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_10004238

Scaffold Ga0222717_10004238


Overview

Basic Information
Taxon OID3300021957 Open in IMG/M
Scaffold IDGa0222717_10004238 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)10618
Total Scaffold Genes29 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)22 (75.86%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (66.67%)
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?
F009890Metagenome / Metatranscriptome311Y
F021990Metagenome / Metatranscriptome216Y
F023857Metagenome / Metatranscriptome208N
F062683Metagenome / Metatranscriptome130Y
F082728Metagenome / Metatranscriptome113Y
F088933Metagenome / Metatranscriptome109N

Sequences

Protein IDFamilyRBSSequence
Ga0222717_1000423814F021990AGCAGGMKLKEIIAITICGLAFMLITGVAKANPVTDWITNEKNKIVEYQTKSWADSKVQLANTKESILNLFNKAKDNVTQD
Ga0222717_1000423818F062683N/AMGYTNTFDSFDSPILAHPGAYFFQKSEENHAFYWGLPFLAIYDTIKTLLTHKQKRTI
Ga0222717_1000423819F088933GAGGMIDETIVIETCNKVLDQIADKDYDGAIDTISKLRADNQKKVDEFDKWAEEESKKQENMAVPDDIGQDGGVENFG
Ga0222717_1000423824F082728AGGMIGYVYMIKKYTEKKHQIMVKKHEKRLAKCKQYLYNNLIDLLMNNLNTNKGETHYV
Ga0222717_100042383F009890N/AMSNHLRNIRALFETAKTHKVSRKVDSYEYEEVEKLILTDNIPYHEVLQLFTDKIYRNWFYDRNFIK
Ga0222717_100042386F023857AGGVSDDNVILFPTDRIKNSKQTGTKNTKFQKQIEKEQTQKFVESAVDDIAMKLLHNFVDLAMKTNTETFTRDFSYLVDVLRATIKRDFGLNHIVHKITDNTVELIHDNAGNTRARIDYSNINNIDFRPKTDRTKEPLSEEVKDELTGVDFIPDFDPSDNDN
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