Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggcatccgcggccgcttcgattcccccccctccccgatccgatttgcccatgtcttgttgatctgatgtgcggcggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCGCGGCACAGGCACTGTGAAGCTGCTCAAGCACAAAGACACCGCCAAGGTC

Basic information

species Zea mays
transcript GRMZM2G094388_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G094388_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g18180.1 (Oryza sativa), 3'ss of exon 1
gtgaggcatccgcggccgcttcgattcccccccctccccgatcc------gatttgcccatgtcttgttgatctgatgtgc--ggcggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCGCGGCACAGGCACTGTGAAGCTGCTCAAGCACAAAGACACCGCCAAGGTC
|| || |  |  |  |  | ||||| ||  ||||   ||||||       | ||||  |    | ||  ||   | | |    ||       |||||||| ||||||| ||||| |||||||||||||||||||| ||||| ||| | ||||| ||||| ||||||||||| |||||||| || |||| |||||||
gtaagccgcctccccctccctcgat-ccagccccgatccgatctcccccggctttgatctgagcctgacgactcgttttttttggatttcccgcagGAAGTCGAAGCTGTACCGCTTCGACAAGGAGGGGAACCAATGGAAGGAGAGAGGCACCGGCACGGTGAAGCTGCTGAAGCACAAGGAGACCGGCAAGGTC

upper sequence: GRMZM2G094388_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA01G29410.1 (Glycine max), 3'ss of exon 1
gtgaggcatccgcggccgcttcgattcccccccc-tccccgatccgattt-gcccatgtcttgttgatctgatgtgcggcggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCGCGGCACAGGCACTGTGAAGCTGCTCAAGCACAAAGACACCGCCAAGGTC
        | ||   || |    |  | | | |  | |  ||   ||||| |    |    |||  ||      ||  |  | | |  |||||||||||||| || ||||| ||||||||||||||||||||||| ||||| |||   || |  || |||||||| || || || | |||||  ||||| 
-------gtacgaaaccacacacacactctctctgttcttgaattgattttgtgttttgaatgtgaattgagcttgttgttgttat--agGAAGGCGAAGCTGTATCGGTTTGACAAGGAGGGGAACCAGTGGAAGGAGCGTGGCGGCGGGAACGTTAAGCTGCTGAAACATAAGGTCACCGGGAAGGTG

upper sequence: GRMZM2G094388_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA10G36500.1 (Glycine max), 3'ss of exon 1
gtgaggcatccgcggccgcttcgattccccccc-----ctccccgat----ccgatttgcccatgtcttgttgatctgatgtgcggcg----gctg--tgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCGCGGCACAGGCACTGTGAAGCTGCTCAAGCACAAAGACACCGCCAAGGTC
|| | ||     |   | ||    || | ||       || ||||||    | | ||||||  ||  | ||     |||||   |       ||||   |||| ||  ||||||| ||||||||||||||||| |||||||||||||| ||||| ||| | |||||||||||| | || ||||| || |   ||| |||||| 
gtaacgctctttctttctctcgtttttctccttttttgcttcccgattttactgttttgccactgattggtgcggttgatgcttgttttctcgctgatcgcagCAAATCGAAGCTTTACCGGTTCGACAAGGACGGGAACCAGTGGAAGGAGCGTGGCGCCGGCACTGTGAAGTTCCTGAAGCATAAGGCTTCCGGCAAGGTT

upper sequence: GRMZM2G094388_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA20G31070.1 (Glycine max), 3'ss of exon 1
gtgaggcatccgcggccgcttcgattccccccc-----ctccccgat----ccgatttgcccatgtcttgttgatctgatgtgcg------gcggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCGCGGCACAGGCACTGTGAAGCTGCTCAAGCACAAAGACACCGCCAAGGTC
|| |  |     |   | ||    || | || |     || | ||||    | | ||||||  ||    ||     |||||   |      |||| |  |||| ||  ||||||| ||||||||||||||||| |||||||||||||| ||||| ||| | ||||| |||||| | || ||||| || |  || | |||||| 
gtaactctctttccttctctctattttctcctcttttgcttctcgattttactgttttgccactgatcggtgcggttgatgcttgttcctcgcggat-cgcagCAAATCGAAGCTTTACCGGTTCGACAAGGATGGGAACCAGTGGAAGGAGCGAGGCGCGGGCACCGTGAAGTTCCTGAAGCATAAGGCTACGGGCAAGGTT

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|211448915|gb|FL108219.1|FL108219
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211524511|gb|FK953546.1|FK953546
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|148980655|gb|EE027273.2|EE027273
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211444672|gb|FL108189.1|FL108189
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211442553|gb|FL108182.1|FL108182
EST:     GAGGTCGCCGTTACCACCGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|60339963|gb|DN206936.1|DN206936
EST:     GCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211448912|gb|FL108216.1|FL108216
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211451036|gb|FL108234.1|FL108234
EST:     GAGGTCGCCGTTACCAC-GGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|60357942|gb|DN224915.1|DN224915
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211451037|gb|FL108235.1|FL108235
EST:     GAGGTCGCCGTTACCACCGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211448918|gb|FL108222.1|FL108222
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|149062846|gb|EE157564.2|EE157564
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|149066733|gb|EE286873.2|EE286873
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211448914|gb|FL108218.1|FL108218
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCCTACCGGTTCGACAAGGAGGGGAACCCAGTGGAAAGAG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTC-TACCGGTTCGACAAGGAGGGGAACC-AGTGGAAAGAG
EST: gi|211451035|gb|FL108233.1|FL108233
EST:     GAGGTCGCCGTTACCAC-GGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211446790|gb|FL108208.1|FL108208
EST:     GAGGTCGCCGTTACCACCGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211446789|gb|FL108207.1|FL108207
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211524510|gb|FK953545.1|FK953545
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211448913|gb|FL108217.1|FL108217
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211448919|gb|FL108223.1|FL108223
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|149077400|gb|EE166087.2|EE166087
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211444679|gb|FL108196.1|FL108196
EST:     GAGGTCGCCGTTACCACCGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|91873482|gb|EB403439.1|EB403439
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|149104616|gb|EE290065.2|EE290065
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|91050171|gb|EB160589.1|EB160589
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|31405549|gb|CD484281.1|CD484281
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211442554|gb|FL108183.1|FL108183
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|21843324|gb|BQ703905.1|BQ703905
EST:     TACCACCGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGCTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: TACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211444669|gb|FL108186.1|FL108186
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211444678|gb|FL108195.1|FL108195
EST:     GAGGTCGCCGTTACCACCGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|149080146|gb|EE169164.2|EE169164
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|26457112|gb|CA828695.1|CA828695
EST:     GAGGTCGCCGTTACCACCGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGNGTTCGACAAGGAGGGGAACCAGTGGAAAGAGC
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCG-GTTCGACAAGGAGGGGAACCAGTGGAAAGAGC
EST: gi|211444677|gb|FL108194.1|FL108194
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAT-AGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|148938960|gb|EC883328.2|EC883328
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211451033|gb|FL108231.1|FL108231
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211442555|gb|FL108184.1|FL108184
EST:     GAGGTCGCCGTTACCACCGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211451038|gb|FL108236.1|FL108236
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGATAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|60356705|gb|DN223678.1|DN223678
EST:     CGCTCCTGCGAC-T                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGC
genomic: CGCTCCTG-GACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGC
EST: gi|211448925|gb|FL108229.1|FL108229
EST:     GAGGTCGCCGTTACCACCGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACATG-AGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|149009987|gb|EE041812.2|EE041812
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|148958579|gb|EC904825.2|EC904825
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|149015774|gb|EE045472.2|EE045472
EST:     GAGGTCGCCGTTACCACCGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211448916|gb|FL108220.1|FL108220
EST:     AGGTCGCCGTTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: AGGTCGCCG-TTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|94475255|gb|EB704213.1|EB704213
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211446791|gb|FL108209.1|FL108209
EST:     GAGGTCGCCGTTACCACCGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|22543179|gb|BU093617.1|BU093617
EST:     GAGGTCGCCGTTACCACCGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|71767760|gb|DR965697.1|DR965697
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|148956502|gb|EC902339.2|EC902339
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211524512|gb|FK953547.1|FK953547
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211446786|gb|FL108204.1|FL108204
EST:     GAGGTCGCCGTTACCACCGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211448923|gb|FL108227.1|FL108227
EST:     GAGGTCGCCGTTACCAC-GGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
EST: gi|211444682|gb|FL108199.1|FL108199
EST:     GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACAT                         GAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG
genomic: GAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 356

GCGAGGATGAGGACACCGGCGCCCAGGTCGCGCCCATCGTGAAGCTGGAGGAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCGCGGCACAGGCACTGTGAAGCTGCTCAAGCACAAAGACACCGCCAAGGTC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 501

GCGAGGATGAGGACACCGGCGCCCAGGTCGCGCCCATCGTGAAGCTGGAGGAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCGCGGCACAGGCACTGTGAAGCTGCTCAAGCACAAAGACACCGCCAAGGTC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 448

GCGAGGATGAGGACACCGGCGCCCAGGTCGCGCCCATCGTGAAGCTGGAGGAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCGCGGCACAGGCACTGTGAAGCTGCTCAAGCACAAAGACACCGCCAAGGTC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 218

GCGAGGATGAGGACACCGGCGCCCAGGTCGCGCCCATCGTGAAGCTGGAGGAGGTCGCCGTTACCACTGGAGAGGAGGACGAGGACGCGCTCCTGGACATgtgaggcatc ... ggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCGCGGCACAGGCACTGTGAAGCTGCTCAAGCACAAAGACACCGCCAAGGTC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctccccgatccgatttgcccatgtcttgttgatctgatgtgcggcggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCGCGGCACAGGCACTGTGAAGCTGCTCAAGCACAAAGACACCGCCAAGGTC
                               atctgat  putative branch site (score: 218)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaggcatccgcggccgcttcgattcccccccctccccgatccgatttgcccatgtcttgttgatctgatgtgcggcggctgtgcagGAAGGCGAAGCTCTACCGGTTCGACAAGGAGGGGAACCAGTGGAAAGAGCGCGGCACAGGCACTGTGAAGCTGCTCAAGCACAAAGACACCGCCAAGGTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT