Scaffold Ga0207665_10000021

Overview

Basic Information

• Taxon OID: 3300025939
• Scaffold ID: Ga0207665_10000021
• Source Dataset Name: Corn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L11-2 metaG (SPAdes)
• Source Dataset Category: Metagenome
• Source Dataset Use Policy: Open
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Sequencing Status: Permanent Draft

Scaffold Components

• Scaffold Length (bps): 111867
• Total Scaffold Genes: 97
• Total Scaffold Genes with Ribosome Binding Sites (RBS): 75 (77.32%)
• Novel Protein Genes: 5
• Novel Protein Genes with Ribosome Binding Sites (RBS): 2 (40.00%)
• Associated Families: 5

Taxonomy: All Organisms → cellular organisms → Bacteria (Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem: Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location

• Location Name: USA: Michigan: Kellogg Biological Station
• Coordinates
  • Lat. (^o): 42.4774
  • Long. (^o): -85.451

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000092	Metagenome / Metatranscriptome	2385	Y
F001311	Metagenome / Metatranscriptome	726	Y
F004042	Metagenome / Metatranscriptome	456	Y
F040290	Metagenome / Metatranscriptome	162	Y
F046961	Metagenome	150	N

Sequences

Protein ID	Family	RBS	Sequence
Ga0207665_1000002127	F046961	N/A	MKYMILLFVLAVLLPTIFGLFRDLFRSPSKKVTPVIEYAQKKGYRLVNPSASQIPGSSLLEMLKNPALRNLVDASSDVADIDGLGHASGGWLAFTSSLRSKEVTIFNCSTTGSINAGSRPIPYKVAKIKTQGLPRFSVGNNSIVRTVQDVVGKMVGEPKLAIDVDPRLYPDFSAHYWIRGSDAAAVSAFLSPEKMRFIETAKLPGILATNTNYLVYFEDGTLQTELDFDSFIATVEKLIPAIL
Ga0207665_1000002130	F000092	GAG	VKQHLGRQSGVQTVDVSLLDGKVVVTPKEDGQIDPAQLLKATYDSGVTAAEMDMTARGKIVKDSSGSLALQVSPNRSFALTPNELSKGLEALVDTPTMVTVRGQLYKKPAGKKKADPSAPLKLLLLEVQKKE
Ga0207665_1000002131	F004042	AGGAGG	MNTKKLALLALLASIVSPVSQAQIKHIEMRVEGMT
Ga0207665_1000002133	F040290	N/A	MMRLAKPIFLAVLAVTLAAYALDCGATTPEQAMDCCKSMACSSHGHHAQDCCKTMQAMHAPFVQPSSAYGVSFSPHVFAVLPATAEPHALGPSGRVIAAHCHAPPIQHTPTPLPLRI
Ga0207665_1000002138	F001311	N/A	MATQQELMTKKLPTGSSTKPISNTERRGSRRCKITQLMRIRPSDPKKDHFEDLRGSVSVSRSGVFFQSSESGYEVGMRLFVTMPYSKDPASMAREYLAEVVRRDVLPTGMFGIGIKILMEMGIQHAYHFGPGQSR