TranspoGene

The influence of Transposed Elements (TEs) on the transcriptome of 7 species

Select gene, protein or genomic area of interest (at least one of the followings) :

Gene symbol:
Swissprot entry name: (e.g: PPNK_HUMAN)	Human and mouse only
Refseq mRNA accession: (e.g: NM_021050)

Refseq protein accession: (e.g: NP_620830)
All TEs located between the selected genomic positions:
	Strand: Start: End:

Positions in TranspoGene database are from the following genome versions: Human: NCBI build 36.1 (UCSC hg18), Mouse: NCBI build 37 (UCSC mm9), Zebrafish: Zv6 assembly (UCSC danRer4), Chicken: draft assmebly v2.1 (UCSC galGal3), Fruit fly: UCSC dm3, Nematode: WS170 (UCSC ce4), Sea squirt: draft assembly v2.0 (UCSC ci2)

Select Transposed Element families of interest:

All organisms: All TEs
Human: All TEs
SINE: All SINE Alu MIR
LINE: All LINE L1 L2 CR1 (L3)
DNA: All DNA MER1 MER2 Other DNA
LTR: All LTR MaLR ERV1 ERVL Other LTR
Mouse: All TEs
SINE: All SINE B1 B2 B4 ID MIR
LINE: All LINE L1 L2 CR1 (L3) RTE
DNA: All DNA MER1 MER2 Other DNA
LTR: All LTR MaLR ERV1 ERVL Other LTR
Zebrafish: All TEs
SINE: All SINE V 5S SINE
LINE: All LINE L1 L2 Rex-Babar RTE I
DNA: All DNA hAT DNA Harbinger Tc1 Other DNA
LTR: All LTR Gypsy Ngaro LTR DIRS1 Other LTR
Chicken: All TEs
SINE: MIR
LINE: CR1
DNA: All DNA Mariner Charlie
LTR: All LTR ERVL ERV1 ERVK
Fruit fly: All TEs
LINE: All LINE CR1 R1 Jockey LINE other LINE
DNA: All DNA DNA P Tc1 HAT other DNA
LTR: All LTR Gypsy Pao Copia LTR
Nematode: All TEs
SINE: SINE
LINE: All LINE CR1 RTE
DNA: All DNA DNA HAT PiggyBac? Pogo Other DNA
LTR: All LTR Gypsy Pao LTR
Sea squirt: All TEs
SINE: SINE
LINE: All LINE L1 L2 Penelope I LOA
DNA: All DNA Tc1 hAT Merlin P piggyBac
LTR: Gypsy
Welcome to TranspoGene Homepage

Select location of transposed elements in genes:

All - TEs located on all types of gene regions
Exonized TEs: Exon derived from TE insertion
Exonic TEs: TE insertion into an existing exon
Intronic TEs
TEs located in putative gene promoter regions

TEs and exons Sequence data are included in the results tables.
cancelling this option will substantially reduce the size of results tables.

TranspoGene is a publicly available database of Transposed elements (TEs) which are located within protein-coding genes of 7 organisms: human, mouse, chicken, zebrafish, fruilt fly, nematode and sea squirt.
Using TranspoGene the user can learn about the many aspects of the effect these TEs have on their hosting genes, such as: exonization events (including alternative splicing-related data), insertion of TEs into introns, exons, and promoters, specific location of the TE over the gene, evolutionary divergence of the TE from its consensus sequence and involvement in diseases.
TranspoGene database is quickly searchable through its website, enables many kinds of searches and is available for download.
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