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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgaaattaagaatgttcacacgttgtttgtggatcaatttattctgtctaatgagaatttatttatctgccaacttgctgcggattggctcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATGAACAAGAACAAGAAGCTGGTTAAGAAGCTTGCCAAGAAGTACCATGCTT

Basic information

species Oryza sativa
transcript LOC_Os08g44450.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g44450.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM5G862017_T01 (Zea mays), 3'ss of exon 9
ctgaaattaagaatgttcacacgttgtttgtggatcaatttatt--ctgtctaatgagaatttatttatctgccaacttgctgcggattggctcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATGAACAAGAACAAGAAGCTGGTTAAGAAGCTTGCCAAGAAGTACCATGCTT
   |    | | | | |   | ||| |     ||| |    | |  |  ||| ||  | ||  | || ||  || ||      |   ||    | |   |||||||||||||| || ||||||||||||||||||||||| || ||||||||||||| |||||||||||| ||||||||||||| |||||||||||||||||
tcaactacatggaagattgaaagttttgctaagataatgcaagtgcccttcttatctggatcaacttttc--cccacacaaaccattttactgcattctcagGCTGAGAAGATGGGACTTGACTACATGGATGTTGAGGCCCTCAAGAAAATGAACAGGAACAAGAAGCTTGTTAAGAAGCTTGTCAAGAAGTACCATGCTT

upper sequence: LOC_Os08g44450.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G170561_T01 (Zea mays), 3'ss of exon 4
ctgaaattaagaatgttcacacgttgtttgtggatcaatttatt--ctgtctaatgagaatttatttatctgccaacttgctgcggattggctcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATGAACAAGAACAAGAAGCTGGTTAAGAAGCTTGCCAAGAAGTACCATGCTT
   |    | | | | |   | ||| |     ||| |    | |  |  ||  ||  | ||  | ||  |  || ||      |   ||    | |   |||||||||||||| || ||||||||||||||||||||||| || |||||||||||||||||||||||||| ||||||||||||||| |||| ||||||||||
tcaactgcatggaagattgaaagttttgctaagatgatgcaagtgcccttcctatctggatcaactttcc--cccacacaaaccattttactgcattctcagGCTGAGAAGATGGGACTTGACTACATGGATGTTGAGGCCCTCAAGAAAATGAACAAGAACAAGAAGCTTGTTAAGAAGCTTGCCGAGAAATACCATGCTT

upper sequence: LOC_Os08g44450.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G074769_T01 (Zea mays), 3'ss of exon 2
------ctgaaattaagaatgttcacacgttgtttgtggatcaatttattctgtctaatgagaatttatttatctgccaacttgctgcggattggctcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATGAACAAGAACAAGAAGCTGGTTAAGAAGCTTGCCAAGAAGTACCATGCTT
         | ||| | | | ||   | | | | |    ||  |  |   ||  ||| |  | ||  | || ||  || ||      |   ||    | |   |||||| ||||||| || ||||||||||||||||||||||| || |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
ctgcatggaagattgaaagttttgctaagatatata---atgcaagtgcccttccta-tctggatcaacttttc--cccacacaaaccattttactgcattctcagGCTAAGAAGATGGGACTTGACTACATGGATGTTGAGGCCCTAAAGAAAATGAACAAGAACAAGAAGCTTGTTAAGAAGCTTGCCAAGAAGTACCATGCTT

upper sequence: LOC_Os08g44450.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G181194_T01 (Zea mays), 3'ss of exon 3
ctgaaattaagaatgttcacacgttgtttgtggatcaatttatt--ctgtctaatgagaatttatttatctgccaacttgctgcggattggctcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATGAACAAGAACAAGAAGCTGGTTAAGAAGCTTGCCAAGAAGTACCATGCTT
   |    | | | | |   | ||| |     ||| |    | |  |  ||  ||  | ||  | || ||| |  ||   |  |   ||    | |   |||||||||||||| || ||||||||||||||||||||||| || |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
tcaactgcatggaagattgaaagttttgctaagataatgcaagtgcccttcctatctggatcaacttttctccacacaaac--cattttactgcattctcagGCTGAGAAGATGGGACTTGACTACATGGATGTTGAGGCCCTCAAGAAAATGAACAAGAACAAGAAGCTTGTTAAGAAGCTTGCCAAGAAGTACCATGCTT

upper sequence: LOC_Os08g44450.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G369991_T01 (Zea mays), 3'ss of exon 2
------ctgaaattaagaatgttcacacgttgtttgtggatcaatttattctgtctaatgagaatttatttatctgccaacttgctgcggattggctcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATGAACAAGAACAAGAAGCTGGTTAAGAAGCTTGCCAAGAAGTACCATGCTT
         | ||| | | | ||   | | | | |    ||  |  |   ||  ||| |  | ||  | || ||  || ||      |   ||    | |   |||||||||||||| || ||||||||||||||||||||||| || |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
ctgcatggaagattgaaagttttgctaagatatata---atgcaagtgcccttccta-tctggatcaacttttc--cccacacaaaccattttactgcattctcagGCTGAGAAGATGGGACTTGACTACATGGATGTTGAGGCCCTCAAGAAAATGAACAAGAACAAGAAGCTTGTTAAGAAGCTTGCCAAGAAGTACCATGCTT

upper sequence: LOC_Os08g44450.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G144387_T01 (Zea mays), 3'ss of exon 3
-----ctgaaattaagaatgttcacacgttgtttgtggatcaatttattctgtctaatgagaatttatttatctgccaacttgctgcggattggct-cgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATGAACAAGAACAAGAAGCTGGTTAAGAAGCTTGCCAAGAAGTACCATGCTT
      || || |  ||  | |    |   | |  ||     ||  | | | |||| |  | ||  | |  ||  |  |||     |   ||  || | | ||||||| |||||||| || |||||||||||||||||||||||||| |||||||||||||||||||||||||| ||||||| |||||||||||||||||||||||
actgtatggaagtttgagagcttttgcccagataatg---tcatgcactgtttcta-tctggatcaactcttcctc--actcaaaaccattttactgcatttgcagGCCGAGAAGATGGGACTTGACTACATGGATGTTGAGGCTCTCAAGAAAATGAACAAGAACAAGAAGCTTGTTAAGAGGCTTGCCAAGAAGTACCATGCTT

upper sequence: LOC_Os08g44450.1 (Oryza sativa), 3'ss of exon 2
lower sequence: PP1S18_121V6.1 (Physcomitrella patens), 3'ss of exon 2
------------------ctgaaattaagaatgttca----cacgttgtttgtggatcaatttattctgtctaatgagaatttatttatctgccaacttgctgcggattggctcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATGAACAAGAACAAGAAGCTGGTTAAGAAGCTTGCCAAGAAGTACCATGCTT
                  || |    |   ||||| |    ||  ||||  |     ||  |||  | |  | || |    ||||||||  |||   ||  |||| |            |||||  | ||||| ||  | || |||||||| || |||    | |||||||||||||||||||||||||| || ||||| || || ||||||||||| ||||
gtatttcctctaactcaactaatgccacccatgttgagaagcattttgtcagcatgccacattacgcaggttgattacctcttatttattcgccccattattgcgta-----------acagGCCAACAAGATGGGCATGGAATACATGGACGTCGAGAGCTTGAAGAAAATGAACAAGAACAAGAAGCTCGTGAAGAAACTGGCGAAGAAGTACCACGCTT

upper sequence: LOC_Os08g44450.1 (Oryza sativa), 3'ss of exon 2
lower sequence: PP1S427_1V6.1 (Physcomitrella patens), 3'ss of exon 2
---------------------------------------------------------------------------------------ctgaaattaagaatgttcacacgttgtttgtgga-----tcaatttattctgtctaatgagaatttatttatctgccaacttgctgcggattg--gctcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATGAACAAGAACAAGAAGCTGGTTAAGAAGCTTGCCAAGAAGTACCATGCTT
                                                                                       || |  | |      ||   |  ||     | ||     |||   | | ||   |||||   | ||  | || |    | || ||   | | |   |||||   |||||    |||| |||  | || | ||||||||| |||    | ||||| ||||||||||||||||| || || |||||||| || ||||||||||| ||||
gtatgcttattctcaaattttgattctttctatttgttgatggtgccagaaattgaataaaacattgtagaattttctgctctgggtctcatctcactggcctttgtatattaaaactagaaattatcaccctttacttgataatggataattgctgatgtcgtgagtttcttttggtcgtaactcgt-cacagGCGACCAAGAATGGTATCGAGTGCATGGATGTCGAGAGCTTGAAGAAGATGAACAAGAACAAGAAACTTGTGAAGAAGCTGGCTAAGAAGTACCACGCTT

upper sequence: LOC_Os08g44450.1 (Oryza sativa), 3'ss of exon 2
lower sequence: PP1S40_297V6.1 (Physcomitrella patens), 3'ss of exon 2
ctgaaattaagaatgttcacacgttgtttgtggatcaatttattctgtctaatgagaattt--atttatctgccaacttgctgcgga--ttggctcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATGAACAAGAACAAGAAGCTGGTTAAGAAGCTTGCCAAGAAGTACCATGCTT
 | | |||  | |  ||   |   | ||||       |||| ||   | |   ||  || |  ||| || |  ||  |     |  |  ||     |     ||||  | || || ||  | || |||||||||||||||    | ||||| ||||||||||| |||||||| || |||||||| || ||||||||||||||||
gtcatattc-gcacattggaataatttttgccttcatatttgtttcatttttagattatcttgattaatgtctcatttcttaaccaacgttcatctgacaatagGCAAACAAAATCGGTATGGAATACATGGATGTTGAGAGCTTGAAGAAGATGAACAAGAATAAGAAGCTCGTCAAGAAGCTGGCTAAGAAGTACCATGCTT

upper sequence: LOC_Os08g44450.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ34353 (Selaginella moellendorffii), 3'ss of exon 2
ctgaaattaagaatgttcacacgttgtttg-tggatcaatttattctgtctaatgagaatttatttatctgccaacttgctgcggattggctcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATGAACAAGAACAAGAAGCTGGTTAAGAAGCTTGCCAAGAAGTACCATGCTT
                         ||  | | || |    | |    | |  ||       ||| |    |      | |||   ||   |  ||  ||||| |||||||| || || |||||||||||| | ||||  || ||||| |||||||||||||||||||| || |||||||| || ||||||||||| ||||
-------------------------gtaagattgagcgccctgtctccttt--tgttgccggattgaatcactggtccgttgc---tt--tttttgcacagGCCGAGAAGATCGGTCTGGACTACATGGATCTGGAGGGGCTGAAGAAGATGAACAAGAACAAGAAGCTCGTGAAGAAGCTGGCAAAGAAGTACCACGCTT

upper sequence: LOC_Os08g44450.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ31249 (Selaginella moellendorffii), 3'ss of exon 2
ctgaaattaagaatgttcacacgttgtttg-tggatcaatttattctgtctaatga--gaatttatttatctgccaacttgctgcggattggctcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATGAACAAGAACAAGAAGCTGGTTAAGAAGCTTGCCAAGAAGTACCATGCTT
                         ||  | | || |    | |    | || |    | ||| | | |   | | | |||||          |  ||  ||||| |||||||| || || |||||||||||| | ||||  || ||||| |||||||||||||||||||| || |||||||| || ||||||||||| ||||
-------------------------gtaagattgagcgccctctctcctttagttgccggattgaatcactggtcca-ttgct---------tttttgcacagGCCGAGAAGATCGGTCTGGACTACATGGATCTGGAGGGGCTGAAGAAGATGAACAAGAACAAGAAGCTCGTGAAGAAGCTGGCAAAGAAGTACCACGCTT

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|33690336|gb|CF318575.1|CF318575
EST:     GGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|58596330|gb|CK006858.1|CK006858
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|218501569|gb|FG968626.1|FG968626
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|29637359|gb|CB642368.1|CB642368
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|58604026|gb|CK014554.1|CK014554
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATNGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|58679944|gb|CK068631.1|CK068631
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|27554288|gb|CA998188.1|CA998188
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|38474392|gb|CF958524.1|CF958524
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATTTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|218492368|gb|FG946130.1|FG946130
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|218495789|gb|FG952983.1|FG952983
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|218502837|gb|FG950277.1|FG950277
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|38483017|gb|CF966819.1|CF966819
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|33811047|gb|CF331414.1|CF331414
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|58594107|gb|CF992415.1|CF992415
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|29687000|gb|CB683275.1|CB683275
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|58588784|gb|CF987092.1|CF987092
EST:     GCCCCAGGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|218497208|gb|FG946438.1|FG946438
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|86601353|gb|CI251727.1|CI251727
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|33823303|gb|CF337452.1|CF337452
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTAC-TGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|27577252|gb|CA999946.1|CA999946
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|58595844|gb|CK006372.1|CK006372
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|27554610|gb|CA998510.1|CA998510
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
EST: gi|58694951|gb|CK083638.1|CK083638
EST:     GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAG                         GCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG
genomic: GCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATG

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 1 RNA-Seqlibrary.


Block sizes: 75 (upstream exon), 70 (downstream exon)
Score: 112

GCAAAAGGACAAGCGTTTCAGCGGCTCCGTCAAGCTGCCCCATATCCCCCGCCCCAAGATGAAGGTCTGCATGCTTGGTGATGCCCAGCATGTCGAGGAGgtaagattat ... tcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATGAACAAGAACAAGAAGCTGGTTAAGAAGCTTGCCAAGAAGTACCATGCTT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtctaatgagaatttatttatctgccaacttgctgcggattggctcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATGAACAAGAACAAGAAGCTGGTTAAGAAGCTTGCCAAGAAGTACCATGCTT
 gtctaat  putative branch site (score: 112)
     aatgagaatttattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctgaaattaagaatgttcacacgttgtttgtggatcaatttattctgtctaatgagaatttatttatctgccaacttgctgcggattggctcgtgtgcagGCTGAGAAGATTGGGCTTGACTACATGGATGTTGAGGCTCTTAAGAAAATGAACAAGAACAAGAAGCTGGTTAAGAAGCTTGCCAAGAAGTACCATGCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctgcca
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