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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttaacattcttcttcccggcaccatctatttcactgcgggtaggtcttggagccttacggttttgagttttgtttcagACGATCGGGACGCTAAAAGGTCACTTAGATTATTCATTTGCATCAGCTTGGCATCCAAACGGTGTAACATTTGCCACAGGAAACCAAGACAAGACCTGTC

Basic information

species Arabidopsis thaliana
transcript AT5G56190.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G56190.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA04G12500.1 (Glycine max), 3'ss of exon 9
-----------gtacttaacattcttcttcccggcacc-atctat-ttcactgcg----ggtaggtcttggagccttacggttttgagttt-tgtttcagACGATCGGGACGCTAAAAGGTCACTTAGATTATTCATTTGCATCAGCTTGGCATCCAAACGGTGTAACATTTGCCACAGGAAACCAAGACAAGACCTGTC
             |||  |  || || |  | || |   || | |   |  ||         ||  |||  ||   |||| ||||  || | | || ||||| || |   |  ||   || ||||| |||||||||||||||||| | ||||||||  | ||||| || |||||||| |||||||| ||||| ||||| |
ttaaactgcacacactccagttttttttaactggaaaggatttgtgcccgttgtatcccaagagagcttatagttatacgattttttgtctgtcttgcagACAATTGTTCCCTTATCTGGGCACTTTGATTATTCATTTGCATCATCATGGCATCCTGATGGTGTGACCTTTGCCACTGGAAACCAGGACAAAACCTGCC

upper sequence: AT5G56190.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv19s0015g01750.t01 (Vitis vinifera), 3'ss of exon 8
---------------------gtacttaacattc-ttcttcccggcaccatctatttcactgcgggtaggtcttggagccttacg---gttttgagttttg-----tttcagACGATCGGGACGCTAAAAGGTCACTTAGATTATTCATTTGCATCAGCTTGGCATCCAAACGGTGTAACATTTGCCACAGGAAACCAAGACAAGACCTGTC
                     ||    |  |     | |   |      ||  || || |||  ||  |    ||||  | |  |    |||||| | |       || |||||  ||  | |  |    || ||||| ||||||||||||||||| || ||| | ||  | |||||||| |||||||| || ||||| ||||| ||||| |
gtattcatctgctctgtttctgtggcaatgacctactataatcaaatttatgcatctctctgaaggctgaaagtggaagcatgtgctgattttgaatctctgatccttgcagACAGTCATGCCATTGTGTGGGCACTTGGATTATTCATTTGCATCGGCATGGAACCCTGATGGTGTAACTTTTGCCACTGGGAACCAGGACAAAACCTGCC
















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|86083643|gb|DR379402.1|DR379402
EST:     TCGTTGGAGATGACCCAGATGGTCTACTGGTAGACACAAGTAACGGACAG                         ACGATCGGGACGCTAAAAGGTCACTTAGATTATTCATTTGCATCAGCTTGG
genomic: TCGTTGGAGATGACCCAGATGGTCTACTGGTAGACACAAGTAACGGACAGgtacttaaca ... tttgtttcagACGATCGGGACGCTAAAAGGTCACTTAGATTATTCATTTGCATCAGCTTGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctatttcactgcgggtaggtcttggagccttacggttttgagttttgtttcagACGATCGGGACGCTAAAAGGTCACTTAGATTATTCATTTGCATCAGCTTGGCATCCAAACGGTGTAACATTTGCCACAGGAAACCAAGACAAGACCTGTC
                            gccttac  putative branch site (score: 3)
                                            ttttgtttc  putative PPT
                                            ttttgttt  TA-rich tract