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 Ga0222712_10001425

Scaffold Ga0222712_10001425


Overview

Basic Information
Taxon OID3300021963 Open in IMG/M
Scaffold IDGa0222712_10001425 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_657D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)29494
Total Scaffold Genes52 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (25.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
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)38.1516Long. (o)-121.6883Alt. (m)Depth (m)10
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009202Metagenome / Metatranscriptome321N
F014228Metagenome264N
F024249Metagenome206N
F043238Metagenome / Metatranscriptome156Y
F079994Metagenome115N
F082108Metagenome113N

Sequences

Protein IDFamilyRBSSequence
Ga0222712_1000142523F082108N/AMLYIVTPCSRPHNLVRLKQHIPAYATWVVMIDANCDFKGATSASITHYSTRTGDMGNPLRNEFLDLYADSFTKEDWVYYLDDDNVLHPKFLEEWNNLNGLDCSIVTWGQVGRLRPTDQPQVGNIDTACYMFKPYDLPNLRFEMTYEADGTFAQAASEQGTLICVEQYLCYYNALR
Ga0222712_1000142531F043238N/AMKYQTISQLLRELKSVDISESILKDIETIEAIHLRYAYLDSSVSVPFEQWYESTFEK
Ga0222712_1000142532F024249N/AMIFTYNDLKFWLEDADLLPQSYWDALEDYDPDNKNSDEILAKFLGYVHVADFYNYEMDITYVEETYNEDGYTNTVAYPTTSIYGEAPKLADDIYTKWLNWATQVASEE
Ga0222712_1000142539F009202N/AMKHLRLMYPSDDTHDLYIREKQLMLAGTAMWLAKQAADKAKGREVQDDLLHHVMSCHYADLLLQQFIDYRQFTEGKMNEMYLANSKLRVDAEQMIYEIQRLQGIIEDSL
Ga0222712_1000142546F014228N/AMNGSTPLKLNPNRLVMWILPMAAILAVVSSCATVKPVLQSVVVRDTVIVTQTKYLTDTLELYKDTTIYQDKVRLQLQYIDRKVYVEATCLPDTIRVTQTKILTKEKKQRGWTLEGGLTMLALVLVGAYIVKRWVDKLTE
Ga0222712_1000142549F079994N/AMEHLKQRLDALKQQEANLLMQLDEVRVLVSAYENTLNKDDKGVG
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