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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatataaattataaactatattggtttttattaacgatttttaaaggtttgggagattaatattgaaattgaattttatagATGACTAATTTAACCAAGGAAGAGTTCGTACACGTACTTCGCCGACAAAGCACAGGCTTCCCTCGAGGAAGTTCGAAGTATAGAGGTGTCACTTTGCATA

Basic information

species Arabidopsis thaliana
transcript AT4G36920.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G36920.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA11G05720.1 (Glycine max), 3'ss of exon 3
------------------------------------------------------------------------gtaaatataaattataaactatattggtttttattaac---gatttttaaaggtttgggagattaatattgaaattgaattttatagATGACTAATTTAACCAAGGAAGAGTTCGTACACGTACTTCGCCGACAAAGCACAGGCTTCCCTCGAGGAAGTTCGAAGTATAGAGGTGTCACTTTGCATA
                                                                         |       | || | || ||    |  |||||| ||    ||  |   |   ||| |   |||||| || |  || |    |||||||||| |||||||||||||||||||| || ||||||||||||||||||||||| || || ||  ||||||| || || ||||||||||| |||||||| |
gtgagtcatcaaagagagggagagaatctgtggaaaggcattatcttatctcgaacagtcgcgtgataccttatcttctacagttcttaattagtgagtattttatcaatcttgaactggtataatttagctaattaatgtttatgttaa----tatagATGACCAATTTAACCAAGGAAGAGTTTGTCCACGTACTTCGCCGACAAAGCACTGGATTTCCCAGAGGAAGCTCCAAATATAGAGGTGTAACTTTGCACA

upper sequence: AT4G36920.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA17G18640.1 (Glycine max), 3'ss of exon 4
---------------------------------------------------------------------------------gtaa-atataaattataaactata-ttggtttttattaacgatttttaaaggtttgggagattaatattgaaattgaattttatagATGACTAATTTAACCAAGGAAGAGTTCGTACACGTACTTCGCCGACAAAGCACAGGCTTCCCTCGAGGAAGTTCGAAGTATAGAGGTGTCACTTTGCATA
                                                                                  ||  ||  |  ||||   ||| | || || ||| ||    || || ||   ||     ||||  | || ||    |  || ||||||||  ||| | ||||||||||||||||| ||||| ||||||||||||||||| || || ||  ||||||| || || |||||||||||||||||||| |
gtgatcaatttgtggattatgttttttttattcgatataaatgcatttatcgtatttatcttatcttgaacagtcatacgtataggatgcaccttatctcctacagttagtgttttttttttatcttgaattattctcatgattt-tgttaaatgcaatgttaatagATGAGCAATCTTACCAAGGAAGAGTTCGTCCACGTGCTTCGCCGACAAAGCACTGGATTTCCGAGAGGAAGCTCCAAATATAGAGGTGTCACTTTGCACA

upper sequence: AT4G36920.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA05G18170.1 (Glycine max), 3'ss of exon 4
----------------------------------------------------------------gtaaatataaattataaactata-ttggtttt-tattaacgatttttaaaggtttgggagattaatattgaaattgaattttatagATGACTAATTTAACCAAGGAAGAGTTCGTACACGTACTTCGCCGACAAAGCACAGGCTTCCCTCGAGGAAGTTCGAAGTATAGAGGTGTCACTTTGCATA
                                                                 ||     |  ||||   ||| | || ||  | | ||  |  | || ||    |     ||||  | || ||    |  || ||||||||  ||| | ||||||||||||||||| ||||| ||||||||||||||||| || || ||  |||| ||||| |||||| |||||||||||||||| |
gtgatcaatttgtgaatatttatattttgttttatcttatcttgaacagtcacacctcatacgtataggatcaccttatctcctacagttagtgctattttttctgtcttgaagtactctcatgattt-tgttaaatgcaatgttaatagATGAGCAATCTTACCAAGGAAGAGTTCGTGCACGTGCTTCGCCGACAAAGCACTGGATTTCCGAGAGGGAGTTCCAAGTATCGAGGTGTCACTTTGCACA

upper sequence: AT4G36920.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA01G39520.2 (Glycine max), 3'ss of exon 4
-----------------------------------------------------------------------------------gtaaata-taaattataaactatattggtttttattaa---cgatttttaaaggtttgggagattaatattgaaattgaattttatagATGACTAATTTAACCAAGGAAGAGTTCGTACACGTACTTCGCCGACAAAGCACAGGCTTCCCTCGAGGAAGTTCGAAGTATAGAGGTGTCACTTTGCATA
                                                                                     |  |  | ||| |  | |||| | |  |||||| ||    || ||   | | |||||   |||||| |||   || |    |||||||||| |||||||| ||||| ||||| || || || ||||||||||||||||| || || ||  ||||||| || || |||||||| || ||||||||||
gtgagtcatcaagagagagggagggagaatctgtggaaaggcatttatcttatctcgaacagtcgcgtgataccttatcttctacagtttcttaatcactagctat-tagtattttatcaatcttgaattggtatgatttggctaattaatgttgtg-ttaa----tatagATGACCAATTTAACTAAGGAGGAGTTTGTGCATGTTCTTCGCCGACAAAGCACTGGATTTCCCAGAGGAAGCTCCAAATATAGAGGCGTAACTTTGCATA

upper sequence: AT4G36920.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv07s0031g00220.t01 (Vitis vinifera), 3'ss of exon 4
-----------------------------------------------------------------------gtaaatataaattataaactatattggttttt---attaacgatttttaaaggtttgggagattaatattgaaattgaattttatagATGACTAATTTAACCAAGGAAGAGTTCGTACACGTACTTCGCCGACAAAGCACAGGCTTCCCTCGAGGAAGTTCGAAGTATAGAGGTGTCACTTTGCATA
                                                                        |   |   | ||   || ||       |      |  || ||   |  |  ||||   |  |  | ||  ||  |  | |  | |||||   ||| |||||||||||||||| || || || |||||||||||||| || || || ||  ||||||| || |||||||||||||| || || || |
gtagagaggggcttcaccttatcttgtacagttccaccttatcttctacagtattttgattcgcttttctgattgttgctagttgagaaatagcaaaaatgaagaaaaaaaagaaagtggattgtttttcatgtatacatgtaatgttgaatgcacagATGGGCAATCTAACCAAGGAAGAGTTTGTGCATGTCCTTCGCCGACAAAGTACTGGTTTTCCGAGAGGAAGCTCCAAGTATAGAGGTGTAACCTTACACA

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|124752979|gb|EH843109.1|EH843109
EST:     AGCGGATATCAATTTCAACATCGACGATTATGATGATGACTTAGAAACAG                         ATGACTAATTTAACCAAGGAAGAGTTCGTACACGTACTTCGCCGACAAAG
genomic: AGCGGATATCAATTTCAACATCGACGATTATGATGATGACTT-GAAACAGgtaaatataa ... aattttatagATGACTAATTTAACCAAGGAAGAGTTCGTACACGTACTTCGCCGACAAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttattaacgatttttaaaggtttgggagattaatattgaaattgaattttatagATGACTAATTTAACCAAGGAAGAGTTCGTACACGTACTTCGCCGACAAAGCACAGGCTTCCCTCGAGGAAGTTCGAAGTATAGAGGTGTCACTTTGCATA
                           agattaatattgaaat  TA-rich tract