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 Ga0075285_1001446

Scaffold Ga0075285_1001446


Overview

Basic Information
Taxon OID3300005890 Open in IMG/M
Scaffold IDGa0075285_1001446 Open in IMG/M
Source Dataset NameRice paddy soil microbial communities from Twitchell Island, California, USA - SF_Rice_20C_0N_104
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2449
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)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → unclassified Gemmatimonadetes → Gemmatimonadetes bacterium(Source: UniRef50)

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
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F014078Metagenome / Metatranscriptome266Y
F019257Metagenome / Metatranscriptome231Y

Sequences

Protein IDFamilyRBSSequence
Ga0075285_10014461F014078GGCGGVRENTSEPVSLLHDFVAQQHANVFMRAFAFDTTQLPVSPENDLALADRVMLMDGIGFIFQLCEREPRVTSKAGDLEKWVASQAGRKGVKQVHNTSALLAGYVGLSIVNHFGHRVTVTARDPGAFVNLVIYRVPPKSRAFRAPRFKRSRNGGFVHILRDVEYFEICDHFVTPAELGDYFGFRRDVLLDWDPAAAAVSESALIGQYLLEDYTSAPDQRFENASHSRGGPTACEFSFVLDSLA
Ga0075285_10014464F019257N/AQRDLDDGAERISDAEELRQVQRQSRAVYVKSFITAVVLTAIALVL*
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