Schema for Natural TE - Transposable Elements Annotated by FlyBase

Database: dm6 Primary Table: transposon_LINE Row Count: 1,087

field	example	SQL type	info
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	47513	`int(10) unsigned`	range
`chromEnd`	52519	`int(10) unsigned`	range
`name`	jockey{}277	`varchar(255)`	values
`score`	1000	`int(10) unsigned`	range
`strand`	+	`char(1)`	values
`id`	FBti0019092	`varchar(255)`	values
`description`	jockey{}277	`longblob`

Sample Rows

chrom	chromStart	chromEnd	name	score	strand	id	description
chr2L	47513	52519	jockey{}277	1000	+	FBti0019092	jockey{}277
chr2L	64315	64936	X{}278	1000	+	FBti0019093	X{}278
chr2L	176392	176512	I{}279	1000	-	FBti0019095	I{}279
chr2L	1570744	1573554	F{}287	1000	+	FBti0019104	F{}287
chr2L	1618308	1618557	jockey{}288	1000	-	FBti0019105	jockey{}288
chr2L	2661257	2663025	I{}295	1000	+	FBti0019111	I{}295
chr2L	4066104	4068854	Juan{}303	1000	-	FBti0019118	Juan{}303
chr2L	4785695	4785747	G2{}5016	1000	-	FBti0063077	G2{}5016
chr2L	4918232	4923234	jockey{}307	1000	-	FBti0019122	jockey{}307
chr2L	5342834	5345142	Doc{}310	1000	-	FBti0019125	Doc{}310

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.

Natural TE (transposable_elements) Track Description

Description

This track shows the locations of the natural transposable elements that have been annotated by FlyBase in release 6.01. The color of each element corresponds to its repeat class:

Repeat Class	Description	Color
TIR	Terminal Inverted Repeats (DNA Transposons)
LINE	Long Interspersed Nuclear Elements (Retrotransposons)
LTR	Long Terminal Repeats (Retrotransposons)
DINE	Drosophila Interspersed Nuclear Elements
Foldback	Foldback Elements
Unclassified	Unclassified Elements

Credits

Transposable elements annotations were extracted from the GFF annotation files provided by FlyBase.