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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagcaacttgtttatactctatagattattatacaatcaacataaaactcaaatttatagtttttgcactgaaacttcttgaagcaaagatggatctcagtgtgataaattttgtgttgcagGAAGAGTGACACCTGAAAGTGTTACGTATAGCTTTGGAACTGTCCTTCTGGATTTGCTTAGCGGAAAACACATCCCTCCAAGCCAT

Basic information

species Arabidopsis thaliana
transcript AT4G35230.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G35230.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv03s0038g03270.t01 (Vitis vinifera), 3'ss of exon 4
gtaaagcaacttgtttatactctatagattattatacaatcaacataaaactcaaatttatagtttttgcactgaaacttcttgaagcaaagatggatctcagtgtgataaattttgtgttgcagGAAGAGTGACACCTGAAAGTGTTACGTATAGCTTTGGAACTGTCCTTCTGGATTTGCTTAGCGGAAAACACATCCCTCCAAGCCAT
                      ||  || ||||||    |     |  |   ||   | |   ||| || |        | ||| |       |   | | | ||  ||||  | | | ||| |||||| || || |||||||||||||  || |||||||| ||||||||| ||||| |||| || ||||| || ||||| ||||| |||
-------------------tagtaaggactattatttccttgttttggattgcatgatcaatctttctgtat------cttttggacttgtactttctgtaattgctataatctgtatattgtagGAAGGGTCACCCCTGAAAGTGTTATTTACAGCTTTGGTACTGTCCTTTTGGATCTGCTAAGTGGAAAGCATATCCCGCCAAGTCAT

upper sequence: AT4G35230.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S178_86V6.1 (Physcomitrella patens), 3'ss of exon 5
----------------------------------------------------------gtaaagcaacttgtttatac---tctatagattattatacaatcaacataaa--actcaaatttatagtttttgcactgaaacttcttgaagcaaagatggatctcagtg--tgataaattttgtgttgcagGAAGAGTGACACCTGAAAGTGTTACGTATAGCTTTGGAACTGTCCTTCTGGATTTGCTTAGCGGAAAACACATCCCTCCAAGCCAT
                                                          |    | ||  | |||   |   |||  | |||||||   |   | |  |||  ||  | ||| | ||     || ||| |  ||  |      |   |||||  | | |  |  |  |||     ||||||| || |||||||||||||||||||  || |||| ||||||||| || || ||| || | || || || ||  | ||||| || || 
gtaccaacttggcatacacccccccatgagtacttaagaactggtaacgaagtctgaagcttggtaatgtatttgcgcaattctggacattattacggacctacccaaaattaccaacattcaaagca---gccctgga-tttagtatgcttactttggattcctgagattcttgtattcaaatttgcagGTAGGGTGACACCTGAAAGTGTTATTTACAGCTATGGAACTGTTCTACTAGATCTGTTGAGTGGGAAGCATCTACCTCCTAGTCAC
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|124979817|gb|EL052816.1|EL052816
EST:     TACACCACCTGAATATCTAAGAAATG                         GAAGAGTGACACCTGAAAGTGTTACGTATAGCTTTGGAACTGTCCTTCTGG
genomic: TACACCACCTGAATATCTAAGAAATGgtaaagcaac ... tgtgttgcagGAAGAGTGACACCTGAAAGTGTTACGTATAGCTTTGGAACTGTCCTTCTGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgaaacttcttgaagcaaagatggatctcagtgtgataaattttgtgttgcagGAAGAGTGACACCTGAAAGTGTTACGTATAGCTTTGGAACTGTCCTTCTGGATTTGCTTAGCGGAAAACACATCCCTCCAAGCCAT
                                     ataaattttgtgtt  TA-rich tract