Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cctgctccagccgttcctttacatacagctactacccccctcctgcgtcctgccctgctgcacaccaagtcttaaccccgtctcacgctgcttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG

Basic information

species Zea mays
transcript GRMZM2G000718_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G000718_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g44350.1 (Oryza sativa), 3'ss of exon 1
cctgctccagccgttcctttacatacagctactacccccctcctgcgtcctgccctgctgcacaccaagtcttaaccccgtctcac-gctgcttgctc-cagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG
 | ||  | || |        || |      | || | ||   |  || || |     ||  | |    ||        |  |||| |||  | | |  ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||| |||||||| |  |||||||| |||||||||||
-cagcggcggcggcggtggctcagattttcgccactcgcccaatctgtgct-cgaaattgttcgcggtttccgctgttgggttcactgcttttcgtttgcagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAACAGGCAGTCCAAGCAGCTGGAAGATCTCACCGGGAAGATGAGGGAGTGCAAGCG

upper sequence: GRMZM2G000718_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ06459 (Selaginella moellendorffii), 3'ss of exon 1
cctgctccagccgttcctttacatacagctactacccccctcctgcgtcctgccctgctgcacaccaagtcttaaccccgtctcacgctgcttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG
                                ||   ||| |     | ||  |  |||  | |  ||    ||      ||||||    |    | |||    || ||||||||||||||||||||||||||  |   | |||||  |||||| |||||||| ||||| ||||||||| | ||||||||| |
-------------------------------gtaagtccccc-----tgctcgctcgctctagat-aatctctagaaatttctcactggccaaaatgcagATCCGGCTTCCAGAAGATGGACAAGATCAAGGAGCCTGCCCGGCAGAGCAAGCATCTGGAGGAGCTCACCGCCAAGATGCGCGAGTGCAAGAG

upper sequence: GRMZM2G000718_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ08727 (Selaginella moellendorffii), 3'ss of exon 1
cctgctccagccgttcctttacatacagctactacccccctcctgcgtcctgccctgctgcacaccaagtcttaaccccgtctcacgctgcttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG
                                ||   ||| |     | ||  |  |||  | |  ||    ||      ||||||    |    | |||    || ||||||||||||||||||||||||||  |   | |||||  |||||| ||||| || ||||| ||||||||| | ||||||||| |
-------------------------------gtaagtccccc-----tgctcgctcgctctagat-aatctctagaaatttctcactggccaaaatgcagATCCGGCTTCCAGAAGATGGACAAGATCAAGGAGCCTGCCCGGCAGAGCAAGCATCTGGAAGAGCTCACCGCCAAGATGCGCGAGTGCAAGAG

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|211500862|gb|FL344781.1|FL344781
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211216370|gb|FL354222.1|FL354222
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|28361821|gb|CB240177.1|CB240177
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211331666|gb|FL364084.1|FL364084
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGAGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211142613|gb|FL363442.1|FL363442
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGAGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211028706|gb|FL343658.1|FL343658
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGAGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211108631|gb|FL325828.1|FL325828
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGAGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211236842|gb|FL308499.1|FL308499
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAAGATCAAGGACTCCAGCAGGCAGTTCC
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAA-GATCAAGGACTCCAGCAGGCAGT-CC
EST: gi|149002889|gb|EE038886.2|EE038886
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211314061|gb|FL325145.1|FL325145
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211049854|gb|FL341783.1|FL341783
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|148941490|gb|EC886419.2|EC886419
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211276380|gb|FL349488.1|FL349488
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGAGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|21843414|gb|BQ703995.1|BQ703995
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211224799|gb|FL342363.1|FL342363
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211541608|gb|FL367257.1|FL367257
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|33466594|gb|CF243643.1|CF243643
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|71327359|gb|DR800293.1|DR800293
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211440064|gb|FL316511.1|FL316511
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGAGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211116685|gb|FL364784.1|FL364784
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGSGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGSAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|148993116|gb|EE033716.2|EE033716
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211164059|gb|FL355972.1|FL355972
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|149112851|gb|EE295664.2|EE295664
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|149009782|gb|EE041679.2|EE041679
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211213742|gb|FL351383.1|FL351383
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|78117925|gb|DV536312.1|DV536312
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211067349|gb|FL342683.1|FL342683
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211037667|gb|FL309759.1|FL309759
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|149089650|gb|EE178904.2|EE178904
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|78083753|gb|DV512146.1|DV512146
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211285641|gb|FL366666.1|FL366666
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAATATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211036070|gb|FL343701.1|FL343701
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGAGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211510365|gb|FL349271.1|FL349271
EST:     GAGCTNGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211162036|gb|FL334323.1|FL334323
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211100818|gb|FL317193.1|FL317193
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211264789|gb|FL317771.1|FL317771
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211103512|gb|FL329043.1|FL329043
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGAGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|15198937|gb|BI423569.1|BI423569
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCA
EST: gi|91869534|gb|EB400432.1|EB400432
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211125915|gb|FL330703.1|FL330703
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGAGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|30088413|gb|CB886618.1|CB886618
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211512069|gb|FL314329.1|FL314329
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|28361634|gb|CB239990.1|CB239990
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211262335|gb|FL317743.1|FL317743
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGAGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211314807|gb|FL364565.1|FL364565
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGAGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211411458|gb|FL312810.1|FL312810
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|149074291|gb|EE162669.2|EE162669
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211529407|gb|FL360248.1|FL360248
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|50333644|gb|CO528770.1|CO528770
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211190651|gb|FL327243.1|FL327243
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|26456321|gb|CA827904.1|CA827904
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211477883|gb|FL341268.1|FL341268
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|20301313|gb|BQ164256.1|BQ164256
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
EST: gi|211018150|gb|FL327162.1|FL327162
EST:     GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGAGCGCTCCA                         GAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA
genomic: GAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAA

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: 270

CCGAGGAGGGGATCCAGCGAGCCATGTCGACCGACGTGCCCATGAGCCCCGAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 110

CCGAGGAGGGGATCCAGCGAGCCATGTCGACCGACGTGCCCATGAGCCCCGAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 73

CCGAGGAGGGGATCCAGCGAGCCATGTCGACCGACGTGCCCATGAGCCCCGAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 133

CCGAGGAGGGGATCCAGCGAGCCATGTCGACCGACGTGCCCATGAGCCCCGAGCTCGAGCAGGTGGACGGCGAGATCCAGGACATCTTCCGCGCGCTCCAgtgagtcaga ... cttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtcctgccctgctgcacaccaagtcttaaccccgtctcacgctgcttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG
                                             cttgctcc  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cctgctccagccgttcctttacatacagctactacccccctcctgcgtcctgccctgctgcacaccaagtcttaaccccgtctcacgctgcttgctccagGAATGGGTTCCAGAAGATGGACAAGATCAAGGACTCCAGCAGGCAGTCCAAGCAGCTGGAGGATCTCACGGCCAAGATGAGAGAGTGCAAGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
-ctgctcc
- - - - - - - - - - - - -cagctac
- - - - - - - - - - - - - - - - - - - -ctcctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gctgcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacgctg