Scaffold Ga0207684_10000024

Overview

Basic Information

• Taxon OID: 3300025910
• Scaffold ID: Ga0207684_10000024
• Source Dataset Name: Corn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-1 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): 322180
• Total Scaffold Genes: 338
• Total Scaffold Genes with Ribosome Binding Sites (RBS): 209 (61.83%)
• Novel Protein Genes: 13
• Novel Protein Genes with Ribosome Binding Sites (RBS): 5 (38.46%)
• Associated Families: 13

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): 42.3948
  • Long. (^o): -85.3738

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001870	Metagenome / Metatranscriptome	624	Y
F014717	Metagenome / Metatranscriptome	260	Y
F020505	Metagenome	223	Y
F021061	Metagenome / Metatranscriptome	220	Y
F021485	Metagenome / Metatranscriptome	218	Y
F026820	Metagenome / Metatranscriptome	196	Y
F030009	Metagenome	186	Y
F036581	Metagenome	169	Y
F046226	Metagenome	151	Y
F067471	Metagenome	125	Y
F075819	Metagenome / Metatranscriptome	118	Y
F086972	Metagenome / Metatranscriptome	110	N
F096800	Metagenome	104	Y

Sequences

Protein ID	Family	RBS	Sequence
Ga0207684_10000024129	F096800	GGAG	VPAEHRCAACDAPLDLARYARCDVCKGARFCISCARGHLCTARCASNGCIAGLCVHVVRAGVVDPRYGVVE
Ga0207684_10000024147	F026820	N/A	MQVSQVAYDRFIVELPPADADYRPLADPETLAETAAWLWDFGPTPLVAVVSYDGAAPSWLSAWSPRKIDTTPEGKKTGAAVVLSERSDLERFLSEGAPHEHTELLWPSISEAKTFEALHAGGTAWLKTIDAHAKISNKGERFEVEQIEP
Ga0207684_1000002415	F021485	N/A	MRLIATGVFALAVTSATLAGSGLVVAPHVDPPGTPKYHDHVLAAYRLPIFLANLQARFDPRQGVLTEQPLDAATFAFVLALLTFAWPRLPRPTRRPIAELAPARVGLAQWRSPLILGPPR
Ga0207684_10000024170	F001870	GGAGG	VTITVSLLLTLIALVCGVLMLVSGRWSKWPLAAIAVICLALVQSGLIKM
Ga0207684_1000002418	F014717	N/A	VTLLSVLPHGATGTWLDEILEFGIPLIVLIVLYVWSSRKPKTKQKSK
Ga0207684_10000024208	F067471	N/A	VPPIDGFYPLVSLAAFLSGGCFGFYAAWRGYAQRRARIRELPRELRELSEVDSWAA
Ga0207684_10000024248	F020505	N/A	VRQILLLALVLLSVVASPAAADDDRTRFRRTTPRASLELDAGTFRIGVPSGRAWGIESELRLLPTERALAVRLVVVDDDVREAFARVAYYASATGRPRQIAVVDSEAVAARDGRLLFVALDPPPGAVAYRVRVLARLRAGSERSQDEAIDARLTMIDRAATRFGSLFSRLLPDGP
Ga0207684_1000002455	F021061	GAG	VKRAGAFLPMWALQFVIGMFAVLLAVGLFAAVIGSVVRGPSTFFDEVGKTVARIAPQPQADIRSDADLKAVIKGMPDGRLRVASILADQNRVVFTVTADRAAVKAAVQAGDELRISRTTGEVEIVPTGLPGLVDRIQQAIDDLRRSWFGK
Ga0207684_1000002456	F086972	AGGA	MDAFLAGLIFGIAFGMVVVGFLAVGSYQRGFSQALERRKEWRGELVARQVVARRALEQLRKAS
Ga0207684_1000002466	F046226	GGA	VGTAVRSPLRSLGAILFAALLALSLVASTVDALAATPLGDGSRRDSQTENLREFFHGRGITWE
Ga0207684_1000002469	F036581	N/A	MGCLRLLFFQLWKVLLAALVALVFARVDSYVERRHPDSPPGKAWRAYRGRKKEKTRP
Ga0207684_100000247	F030009	N/A	VWRPVSALALALVVAACGPRPVTVERTATPSVIVVPTELPNGRVDIAIQPTYVLGAPTRVDVTVVTTRGTIIGPTEARVMASGINEAGSPAEVLVRRLDVKASAVTAGRRATTSLTWDGDDEFGVRVPADAYVLLLAFESNDGGSTRTFRATATLQMND
Ga0207684_1000002478	F075819	N/A	MRLFPVFFAVAILVAIVGLSASATDTVVRCGQVSEQTPASFVLSSPGVDPLRVAIPSGKEIAAADYVCVSVLPGTPAAQLVAIVTPEMPGYVAEH