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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatgacctgacttatcttgaactattttccatttcttgaaatagttgtgtacctaaataattctatcctgatggtaaggttcaccaaagtcatcttagatttggtatcttattgatgaaatgatttttcctattatctgcagGATAATTTTGGTAAACTGCACGATAGAAGCAAAGAAACACCTAAATCAATGAAACAAATAACTCGACTATTTCCTAACAAAATCGCCATCCAGTTACCTC

Basic information

species Arabidopsis thaliana
transcript AT4G02480.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G02480.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 14
gtatgatgacctgacttatcttgaactattttccatttcttgaaatagttgtgtacctaaataattctatcctgatggtaaggttcaccaaagtcatctta-gatttggtatctt--attgatgaaa--tgatttttcctattatctgcagGATAATTTTGGTAAACTGCACGATAGAAGCAAAGAAACACCTAAATCAATGAAACAAATAACTCGACTATTTCCTAACAAAATCGCCATCCAGTTACCTC
                                                         ||   ||||        || |  |     |  |  ||  | | | ||| ||| |||||  ||   |  ||  | | | ||    |  | |||||||||| ||||||| |||||| ||||||||||||||||| || ||  ||||||| ||| | ||||| || ||||| |||||| |    || ||| | || |
---------------------------------------------------caggtttagtaaatttctgtgcaattgggaatacaattagtgtattgtaatgatatggcatcttttatcagtagaaattaactatttgcttgttatgcagGATAACTTTGGTAGACTGCATGATAGAAGCAAAGAAACCCCCAAGACAATGAAGCAACTCACTCGGCTTTTTCCAAACAAAGTGATGATACAGCTGCCAC
















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|125306275|gb|EL320360.1|EL320360
EST:     TTACTAAGTTTGGTGGCAATCAGACGGCACTACTGGATCTAGCATTTCCG                         GATAATTTTGGTAAACTGCACGATAGAAGC
genomic: TTACTAAGTTTGGTGGCAATCAGACGGCACTACTGGATCTAGCATTTCCGgtatgatgac ... ttatctgcagGATAATTTTGGTAAACTGCACGATAGAAGC
EST: gi|164208225|gb|EL975515.1|EL975515
EST:     TTACTAAGTTTGGTGGCAATCAGACGGCACTACTGGATCTAGCATTTCCG                         GATAATTTTGGTAAACTGCACGA
genomic: TTACTAAGTTTGGTGGCAATCAGACGGCACTACTGGATCTAGCATTTCCGgtatgatgac ... ttatctgcagGATAATTTTGGTAAACTGCACGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtcatcttagatttggtatcttattgatgaaatgatttttcctattatctgcagGATAATTTTGGTAAACTGCACGATAGAAGCAAAGAAACACCTAAATCAATGAAACAAATAACTCGACTATTTCCTAACAAAATCGCCATCCAGTTACCTC
                      tattgat  putative branch site (score: 3)
                                    tttttcctattatct  putative PPT
                           atgaaatgattttt  TA-rich tract