Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agcatgcgtctcaaatccagtgctccttttcaatcacatattgaactaaaacactttcatcattgactcatttgattctatccatatgcgccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG

Basic information

species Zea mays
transcript GRMZM2G104017_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G104017_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g01600.2 (Oryza sativa), 3'ss of exon 1
agcatgcgtctcaaatccagtgctccttttcaatcacatattgaactaaaacactttcatcattgactcatttgattctatccatatgcgccacctgcagCAGTTCTGTAG-AAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
       |  | |  |  ||   | | |     ||   |  || |    |||| |   ||||  | | |   |  || |     |||   |   |||||||  |||||||| |||||||||| |||||||||||||||||||||||||| ||||||||||| ||||||||||||
-----atgatttagttgaagaaatgcgtcgtcgtcgagt--tgtatagcaacaatg--atca--ggcactactacttgttaaagtattaactctctgcagctcttctgtagGAAATGGCTGACGGTGAGGACATCCAGCCTCTTGTCTGTGACAATGGCACTGGAATGGTCAAG

upper sequence: GRMZM2G104017_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g01600.1 (Oryza sativa), 3'ss of exon 1
agcatgcgtctcaaatccagtgctccttttcaatcacatattgaactaaaacactttcatcatt-gactcatttgattctatccatatgcgccacctgcagCAGTTCTGTAG-AAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
|| |  | ||    ||  |||        |   ||     | ||  |  |   |    || ||  | | |   |  || |     |||   |   |||||||  |||||||| |||||||||| |||||||||||||||||||||||||| ||||||||||| ||||||||||||
agtactcatcaatgatttagttgaagaaatgcgtcgt-cgtcgagttgtatagcaacaatgatcaggcactactacttgttaaagtattaactctctgcagCTCTTCTGTAGGAAATGGCTGACGGTGAGGACATCCAGCCTCTTGTCTGTGACAATGGCACTGGAATGGTCAAG

upper sequence: GRMZM2G104017_T03 (Zea mays), 3'ss of exon 1
lower sequence: AT5G09810.1 (Arabidopsis thaliana), 3'ss of exon 1
agcatgcgtctcaaatccagtgctccttttcaatcacatattgaactaaaacactttca--tcattgactcatttgattctatccatatgcgccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
            |||  | |     |||   ||  |  |  ||| || |  |   || |  ||||   || ||   ||||  | |   | |              ||    | ||||||| ||||||||||| || ||||| |||||||| |||||||| || |||||||| |||
---------aataaacgctgctaatcttcgaaactaagttgtgatctgattcgtgtttacttcatgagcttatccaattcatttcggtttcattttactttttttttagTGAAAAATGGCCGATGGTGAGGATATTCAGCCACTTGTCTGTGACAATGGAACTGGAATGGTGAAG

upper sequence: GRMZM2G104017_T03 (Zea mays), 3'ss of exon 1
lower sequence: PP1S372_38V6.1 (Physcomitrella patens), 3'ss of exon 1
------------------------agcatgcgtctcaaatccagtgctccttttcaatcacatattgaactaaaacactttcatcat-tgactcatttgattctatccatatgcgccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
                        || |   |  |||  |  | || ||   | |  |   ||| |  |  |||  |     ||  | |  |    ||   | |  | |  ||    | | |   ||       |   |||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||
atcagtctatcgaatccacctaccaggactaggatcagttgtaatgttcgcctcccttgggataattcatgaaagaagacaaattgtatttcgtgcttagGTGTTGCAAAGTGGTTGAGCAGGTCCAAACTA--AACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG

upper sequence: GRMZM2G104017_T03 (Zea mays), 3'ss of exon 1
lower sequence: PP1S372_38V6.4 (Physcomitrella patens), 3'ss of exon 1
--agcatgcgtctcaaatccagtgctccttttcaatcacatattgaactaaaacactttcatcat-tgactcatttgattctatccatatgcgccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
  || |   |  |||  |  | || ||   | |  |   ||| |  |  |||  |     ||  | |  |    ||   | |  | |  ||    | | |   ||       |   |||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||
ccaggactaggatcagttgtaatgttcgcctcccttgggataattcatgaaagaagacaaattgtatttcgtgcttaggtgttgcaaagtggttgagcagGTCCAAACTA--AACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG

upper sequence: GRMZM2G104017_T03 (Zea mays), 3'ss of exon 1
lower sequence: PP1S372_38V6.3 (Physcomitrella patens), 3'ss of exon 1
-------------agcatgcgtctcaaatccagtgctccttttcaatcacatattgaactaaaacactttcatcat-tgactcatttgattctatccatatgcgccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
             || |   |  |||  |  | || ||   | |  |   ||| |  |  |||  |     ||  | |  |    ||   | |  | |  ||    | | |   ||       |   |||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||
gaatccacctaccaggactaggatcagttgtaatgttcgcctcccttgggataattcatgaaagaagacaaattgtatttcgtgcttaggtgttgcaaagTGGTTGAGCAGGTCCAAACTA--AACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG

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|149017500|gb|EE045696.2|EE045696
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211534821|gb|FL109190.1|FL109190
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|87153890|gb|DY398679.1|DY398679
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211534819|gb|FL109188.1|FL109188
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211534829|gb|FL109198.1|FL109198
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGG-GAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211528818|gb|FL109164.1|FL109164
EST:     GGGTGCTSAGGCTTTCRTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|29167959|gb|CB411219.1|CB411219
EST:     TGGCCTCTTCGCCGGCAGCGAGCACCCA-C--                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: TGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|67041579|gb|CO467834.1|CO467834
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCA-C--                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211534820|gb|FL109189.1|FL109189
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCA-C--                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|61117775|gb|DN558736.1|DN558736
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|148962309|gb|EE013139.2|EE013139
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211528811|gb|FL109157.1|FL109157
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCA-C--                         CAGTTCWTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCG
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTC-TGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCG
EST: gi|211528820|gb|FL109166.1|FL109166
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211528813|gb|FL109159.1|FL109159
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|148931636|gb|EC874778.2|EC874778
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|31440945|gb|CD510376.1|CD510376
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|32865014|gb|CF004696.1|CF004696
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211528816|gb|FL109162.1|FL109162
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211534823|gb|FL109192.1|FL109192
EST:     GGGTGCTGAGGCTTTCRTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTCGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTMWGCG
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCT-GTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCG
EST: gi|149082827|gb|EE172052.2|EE172052
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211528821|gb|FL109167.1|FL109167
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCA-C--                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211537829|gb|FL109203.1|FL109203
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCHGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211534818|gb|FL109187.1|FL109187
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211531825|gb|FL109182.1|FL109182
EST:     GGGTGCTGAGGCTTTCGTKGGCCTCTTCSCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|32914327|gb|CF019139.1|CF019139
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCA-C--                         CAGTTCTGTAGAAATGTTTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211528815|gb|FL109161.1|FL109161
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCA-C--                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211537825|gb|FL109199.1|FL109199
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCA-C--                         CAGTTCTGTAGAAATGGTTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211528822|gb|FL109168.1|FL109168
EST:     -GGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|4152156|gb|AI372290.1|AI372290
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211528819|gb|FL109165.1|FL109165
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCA-C--                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|32864284|gb|CF003966.1|CF003966
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCA-C--                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211534828|gb|FL109197.1|FL109197
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|22489553|gb|BU049476.1|BU049476
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211531817|gb|FL109174.1|FL109174
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGMGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|17970119|gb|BM276870.1|BM276870
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|31358965|gb|CD443322.1|CD443322
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211534815|gb|FL109184.1|FL109184
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAKAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211531820|gb|FL109177.1|FL109177
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCA-C--                         CAGYTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|149097364|gb|EE183207.2|EE183207
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211534827|gb|FL109196.1|FL109196
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|31353858|gb|CD438215.1|CD438215
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGTCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|149013960|gb|EE043464.2|EE043464
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211528814|gb|FL109160.1|FL109160
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCA-C--                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211531821|gb|FL109178.1|FL109178
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211531815|gb|FL109172.1|FL109172
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCA-C--                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211528812|gb|FL109158.1|FL109158
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCA-C--                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|19058870|gb|BM737537.1|BM737537
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAAAGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211531824|gb|FL109181.1|FL109181
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|149080410|gb|EE169431.2|EE169431
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211531819|gb|FL109176.1|FL109176
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CWGTTCTGTA-AAAWTGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCG
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAA-TGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCG
EST: gi|211531812|gb|FL109169.1|FL109169
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211219310|gb|FL382549.1|FL382549
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211531816|gb|FL109173.1|FL109173
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|149087628|gb|EE177018.2|EE177018
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCA-C--                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|31363803|gb|CD448158.1|CD448158
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|60358575|gb|DN225548.1|DN225548
EST:     GCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|211534824|gb|FL109193.1|FL109193
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|17970009|gb|BM276777.1|BM276777
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
EST: gi|17969990|gb|BM276759.1|BM276759
EST:     GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAG                         CAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA
genomic: GGGTGCTGAGGCTTTCGTTGGCCTCTTCGCCGGCAGCGAGCACCCACCAGgtactcccac ... ccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctaaaacactttcatcattgactcatttgattctatccatatgcgccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG
                        atttgatt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agcatgcgtctcaaatccagtgctccttttcaatcacatattgaactaaaacactttcatcattgactcatttgattctatccatatgcgccacctgcagCAGTTCTGTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAG

agcatgc
- - - - - - - - - -gtgctcc
- - - - - - - - - - - - - - - -aatcaca
- - - - - - - - - - - - - - - - - - - - - -aactaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catatgc