C-GATE - catalogue of genes affected by transposable elements

Table 1 Examples of C-GATE

Species *	Type *	Family	Subfamily	Regulatory effect *	Comments *	Gene *	Gene regulatory networks	Environment response?	Date of publication *	Reference (1) *	Reference (2)
Latin name	LTR, LINE, SINE, DNA	TE family	TE sub-family	How does the TE impact the gene?	A clear summary of the publication and/or details on the exaptation event.	Gene with the TE exaptation	Is the TE or gene part of a regulatory network?	Is the exaptation a response to environment changes?		Reference with a link to the journal	Second reference if necessary
Homo sapiens	LTR	ERV-1	HERV-9	Alternative promoter	12% of NAIP total expression in testis is due to a LTR9.	NAIP			2007	Romanish et al. (2007) PloS Genetics [11]
Homo sapiens	LTR	ERV-3	Mer74C	Primary promoter	Bioinformatic analysis of human and mouse RefSeq UTRs. CA1 is transcribed through two promoters one of which is a LTR copy, present in both human and mouse that confers erythroid specific expression in both species. Chimeras were confirmed through bibliography or RT PCR. Coordinates are from hg18.	CA1			2003	Van de Lagemaat et al. (2003) Trends Genet [18]	Piriyapongsa et al. (2007) BMC Genomics [19]

* Mandatory field.
Note that columns containing coordinates of the TE, its position relative to the gene and any influence on phenotype have been omitted for clarity but are present in C-GATE.

ISSN: 1759-8753