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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccgtctgcaacaaaaactcggtagttctcctgttcgggttaaccttgatcatattctaaaagctgtctatattcatttatttgcagAACCTGGTTACTATGAAGACGGGAACTTTGGTATTAGGTTGGAGAATGTTCTTGTTGTCAATGACGCTGAGACTGAATTCAATTTTGGCGACAAGGGCTA

Basic information

species Arabidopsis thaliana
transcript AT4G36760.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G36760.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA01G38410.1 (Glycine max), 3'ss of exon 14
---------------------------------------------------------------------------------------------------gtccgtctgcaacaaaaactcggtagttctcctgttcgggttaaccttgat-catattctaaaagctgtctatattcatttatttg-cagAACCTGGTTACTATGAAGACGGGAACTTTGGTATTAGGTTGGAGAATGTTCTTGTTGTCAATGACGCTGAGACTGAATTCAATTTTGGCGACAAGGGCTA
                                                                                                    |   | | |                  |   || | |  |  || |  || ||| |  ||  ||   |  ||    |||  |||  ||||||||||||||||||| || ||  | ||||| || || ||||||||||| ||| ||||||| || ||||| ||    ||||||||||| || |  || ||
gttggtatcattttttctaagtagaccatgaaattgtgattaccatgttatttatctgttattattaattttgtatttgattgttctgaatcagtttcaatttatttactggtcttttcaaaggccacaaatgcttgattgtacttgaatgcatttgttatgagtgttgcattgaaattggtttttcagAACCTGGTTACTATGAGGATGGAGAGTTTGGGATAAGATTGGAGAATGTGCTTATTGTCAAGGAGGCTGATACAACTTTCAATTTTGGTGATAGAGGTTA

upper sequence: AT4G36760.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv04s0023g01300.t01 (Vitis vinifera), 3'ss of exon 14
gtccgtctgcaacaaaa-----actcggtagttctcctgttcgggttaaccttga-------tcatattctaaaagctg---tctatattcattta----tttgcagAACCTGGTTACTATGAAGACGGGAACTTTGGTATTAGGTTGGAGAATGTTCTTGTTGTCAATGACGCTGAGACTGAATTCAATTTTGGCGACAAGGGCTA
        ||| ||||       || | |  ||   |  || | |  | |||| |       | ||  |  ||||  ||   | |||||| |  |     ||| |||||||||||||||| || || ||||||||||| || || ||||||||||| || ||  |||| || ||||| ||  ||||||||||||| || ||||| ||
-------ggcaccaaattttctgcttgttcctttcaccttttgtgagagccttaaaatgcttttatgctagaaaaaatggattttatattgaaattgtgttttccagAACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCCTCGTAATCAAGGAGGCTGATACAAAATTCAATTTTGGTGATAAGGGTTA
















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|116468011|gb|EG510603.1|EG510603
EST:     ACCGAGTGCCAGGAATGTACCTCTTCAAGCTACCATGACTGTAACAGATG                         AACCTGGTTACTATGAAGACGGGAACTTTGGTATTAGGTTGGAGAATGTTC
genomic: ACCGAGTGCCAGGAATGTACCTCTTCAAGCTACCATGACTGTAACAGATGgtccgtctgc ... ttatttgcagAACCTGGTTACTATGAAGACGGGAACTTTGGTATTAGGTTGGAGAATGTTC
EST: gi|116468010|gb|EG510602.1|EG510602
EST:     ACCGAGTGCCAGGAATGTACCTCTTCAAGCTACCATGACTGTAACAGATG                         AACCTGGTTACTATGAAGACGGGAACTTTGGTATTAGGTTGGAGAATGTTC
genomic: ACCGAGTGCCAGGAATGTACCTCTTCAAGCTACCATGACTGTAACAGATGgtccgtctgc ... ttatttgcagAACCTGGTTACTATGAAGACGGGAACTTTGGTATTAGGTTGGAGAATGTTC
EST: gi|86087805|gb|DR383564.1|DR383564
EST:     ACCGAGTGCCAGGAATGTACCTCTTCAAGCTACCATGACTGTAACAGATG                         AACCTGGTTACTATGAAGACGGGAACTTTGGTATTAGGTTGGAGAATGTTC
genomic: ACCGAGTGCCAGGAATGTACCTCTTCAAGCTACCATGACTGTAACAGATGgtccgtctgc ... ttatttgcagAACCTGGTTACTATGAAGACGGGAACTTTGGTATTAGGTTGGAGAATGTTC
EST: gi|86064645|gb|DR360402.1|DR360402
EST:     ACCGAGTGCCAGGAATGTACCTCTTCAAGCTACCATGACTGTAACAGATG                         AACCTGGTTACTATGAAGACGGGAACTTTGGTATTAGGTTGGAGAATGTTC
genomic: ACCGAGTGCCAGGAATGTACCTCTTCAAGCTACCATGACTGTAACAGATGgtccgtctgc ... ttatttgcagAACCTGGTTACTATGAAGACGGGAACTTTGGTATTAGGTTGGAGAATGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttcgggttaaccttgatcatattctaaaagctgtctatattcatttatttgcagAACCTGGTTACTATGAAGACGGGAACTTTGGTATTAGGTTGGAGAATGTTCTTGTTGTCAATGACGCTGAGACTGAATTCAATTTTGGCGACAAGGGCTA
                      ttctaaa  putative branch site (score: 2)
                                        ttcattt  putative PPT
                                  tctatattcatttatt  TA-rich tract