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 Ga0075298_1000021

Scaffold Ga0075298_1000021


Overview

Basic Information
Taxon OID3300005880 Open in IMG/M
Scaffold IDGa0075298_1000021 Open in IMG/M
Source Dataset NameRice paddy soil microbial communities from Twitchell Island, California, USA - SF_Rice_25C_80N_201
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3378
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Wetlands → Unclassified → Rice Paddy Soil → Natural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration

Source Dataset Sampling Location
Location NameUSA: Twitchell Island, California
CoordinatesLat. (o)38.1087Long. (o)-121.653Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F034408Metagenome / Metatranscriptome175Y
F091541Metagenome / Metatranscriptome107Y

Sequences

Protein IDFamilyRBSSequence
Ga0075298_10000212F034408GGAMQPHRADIRDLALWAPRVAYGMVVGVPRAPFTIDVPIVFSSSTVNAPPVVNSFQNNLAQDTWIERVAYNLFQPNSFPGSPFQSLYFSELKQSGQTGVGVQMQVFGAPKYVINDPFTDLGNLMDVFSMAWPNGWLLPKQSNVKVAAILTQTPVSVPFNVTLTFQGWQWVDKALDDLSDAEARARLRKLGIETPDLSILLPTR*
Ga0075298_10000213F091541GAGGMSKSIIGRKIIKFGDSQDKVRRVPFGLGKTPGDLAAADKCIKCSFGNIPVIEEVVWTVPLPLTAEEATATFADTVNLLSGSSSVPGVASIDSTFLINGILQTDILTQGVGVHVFHEPMSWSSIGNAFLAPATAVAAPPSPDVYTENDVAHGALGATGGTTITDANYTPADFEWGGPAWKAGWNFINAYQFQWKTSQRELVLNELAADVSYFGSFADAEASGTSEVPIIEFVATANAIYRSKGSSTIFLPVNFRRVGSITTGGVNVGVFHPTRDFDLAPVTWGGLRWQGYGCRGQMYRPIESPCFLERGIPIGMLFVVQDAVHQATMLEALTINNEPLGQNISPDSNITAGNTITGANVMLEQTLDAVPALVAQQVNVSRQTFKGGIIKLGIKLKGWEMPGGWKAYCESSPAMAHLVSTKAAA*
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