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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttattccttttccctggaatactgaacttctccatatttatccatagtccatactgaggtagcttgaatgaccaaggatgttatcaaaaataggaaatggactgtgcagttcatatcaatggccttcgcatatccaacaacctacattgttgtttttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAAAGATACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGAT

Basic information

species Oryza sativa
transcript LOC_Os01g68710.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g68710.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G153991_T01 (Zea mays), 3'ss of exon 4
gttattccttttccctgga---atactgaacttctccatatttatccatagtcca-------tactgaggtagcttga---atgaccaagg---atgttatc-----aaaaatag--gaaatggactgtgcagttcatatcaatggccttcgcatatccaacaacctacattgttgtttttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAAAGATACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGAT
|||| |    || |||  |   | | | || || ||||| ||||||  | |||||       |||| |  |    ||    || |   | |   | || | |     |||||| |  |||||||  | |||  || |||| |   ||   |  | ||||  ||||  ||  ||| ||||  |||| |||||||||||||||| || || |||||||| || |||||||||||||||||||||||||||||||||||||||||||| ||| ||||||||||||| |||||
gttactgtcctttcctatagccacaataaagtt-tccatgtttatctgtggtccagtgtccatactaaactgtactgggatataatataagcatacgtcacccaaaaaaaaatggatgaaatggcatatgccatttatatgacacgcaaccttaaatccgccaactgactctgtcgtttccatctgtagGTTGGGACCAAGGATTGCTCGGTATGTGCGTGGGTGAAAAGAGGAAGCTAAAGATACCTGCAAAGATGGGTTATGGTGAGCGAGGCTCCCCACCAAAGAT

upper sequence: LOC_Os01g68710.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G031204_T02 (Zea mays), 3'ss of exon 3
gttattccttttccctggaatactgaacttctccatatttatccatagtccatactgaggtagcttgaatgaccaaggatgttatcaaaaataggaaatggactgtgcagttcatatcaatggccttcgcatatccaacaacctacattgttgttttt--atctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAAAGATACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGAT
                                                           ||   |||  | ||| |          |||   | || ||||  | |||  || |||||    ||  ||    || |  ||||| |  |||||||||||  | || |||| ||||||||||| || ||||||||||| |||||||||||| |||||||||||||||||||||||||||| ||||| ||| |||||||||||||||||||
-----------------------------------------------------------gtgcattgtgtcaccgaa---------aaacggatgagatggcatatgccatttatatcggacgcgatcttgaattcgccaaccgattttgttgttttttcacctgtagGCTGGGACCAAGGATTGCTAGGTATGTGCGTCGGTGAAAAGCGGAAGCTAAAGATACCTGCAAAGATGGGCTATGGCGAGCGAGGCTCCCCACCGAAGAT

upper sequence: LOC_Os01g68710.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G031204_T01 (Zea mays), 3'ss of exon 4
gttattccttttccctggaatactgaacttctccatatttatccatagtccatactgaggtagcttgaatgaccaaggatgttatcaaaaataggaaatggactgtgcagttcatatcaatggccttcgcatatccaacaacctacattgttgttttt--atctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAAAGATACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGAT
|| | |    ||||||| || | |  |||| || || ||| | |          ||| |||   |||  | ||| |          |||   | || ||||  | |||  || |||||    ||  ||    || |  ||||| |  |||||||||||  | || |||| ||||||||||| || ||||||||||| |||||||||||| |||||||||||||||||||||||||||| ||||| ||| |||||||||||||||||||
gtcactgtccttccctgtaacaatagactt-tctatgtttttac----------ctgtggtgcattgtgtcaccgaa---------aaacggatgagatggcatatgccatttatatcggacgcgatcttgaattcgccaaccgattttgttgttttttcacctgtagGCTGGGACCAAGGATTGCTAGGTATGTGCGTCGGTGAAAAGCGGAAGCTAAAGATACCTGCAAAGATGGGCTATGGCGAGCGAGGCTCCCCACCGAAGAT

upper sequence: LOC_Os01g68710.3 (Oryza sativa), 3'ss of exon 3
lower sequence: AT5G48580.1 (Arabidopsis thaliana), 3'ss of exon 5
gttattccttttccctggaatactgaacttctccatatttatccatagtccatactgaggtagcttgaatgaccaaggatgttatcaaaaataggaaatggactgtgcagttcatatcaatggccttcgcatatccaacaacctacattgttgtttttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAAAGATACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGAT
                                                                             |  || |       | ||   | || | |    ||  | | ||     |||  |  |||  |||     ||| | | |||| | |  ||||||||| ||||| || |||||   |||||| ||||| ||||||||| ||||||||||||| ||  | || ||||| ||   |||||| ||||| |  ||
-----------------------------------------------------------------------------gtagtgacttgcttttggcttttgagtatctcttttcttttaaca-ttttcttaattccttcaatggtaattttcggttttgt-tgcagGTTGGGATCAAGGTTTGCTAGGAGCGTGTGTAGGTGAGAAGAGGAAGTTAAAGATACCTGCTAAACTTGGATATGGAGAACAAGGCTCTCCACCTACTAT

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|88723075|gb|CI746585.1|CI746585
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|86824137|gb|CI260768.1|CI260768
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|55436956|gb|CV731667.1|CV731667
EST:     CAGAGGTGACCCCTTTAAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|3762510|gb|AU029262.1|AU029262
EST:     CAGAGGTGNCCCCTTTGAATTTACTCTTGGANACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATAGTGTGTCGGTGAAAAGTGGAAGCTA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTAT-GTGTGTCGGTGAAAAGAGGAAGCTA
EST: gi|55440369|gb|CV733494.1|CV733494
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|88723491|gb|CI747001.1|CI747001
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|55409944|gb|CV722320.1|CV722320
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|55438455|gb|CV732524.1|CV732524
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|88723609|gb|CI747119.1|CI747119
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|88722134|gb|CI745461.1|CI745461
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAA
EST: gi|88276548|gb|CI397350.1|CI397350
EST:     CAGAGGTGACCCCTTTGAATTTACTCTT-GAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|33659572|gb|CF282185.1|CF282185
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|8527930|gb|AU092745.1|AU092745
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTNAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|88344739|gb|CI624390.1|CI624390
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGGCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|88723542|gb|CI747052.1|CI747052
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|86824178|gb|CI260793.1|CI260793
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|86829242|gb|CI284927.1|CI284927
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|55436954|gb|CV731666.1|CV731666
EST:     CAGAGGTGACCCCTTTAAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|11171677|gb|AU163906.1|AU163906
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|29679614|gb|CB675889.1|CB675889
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|55433322|gb|CV729734.1|CV729734
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|88726773|gb|CI750428.1|CI750428
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|55413431|gb|CV725807.1|CV725807
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|2442348|gb|C74119.1|C74119
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGN-AAGTGATAAAAG                         GTTGGGACCAAGGGT-ACTAGGTATGTGTGTCGGTGAAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAA
EST: gi|55433324|gb|CV729735.1|CV729735
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|55414253|gb|CV726629.1|CV726629
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|55412950|gb|CV725326.1|CV725326
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGAAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|88827090|gb|CI777655.1|CI777655
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|9055415|gb|AU097613.1|AU097613
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|2442460|gb|C74231.1|C74231
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGGACCAAGGGTTACTANGTATGTGTGTCGGTGAAAAGAGGAAGCTA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGG-ACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTA
EST: gi|86829393|gb|CI285036.1|CI285036
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|27547036|gb|CA765286.2|CA765286
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|55441436|gb|CV734038.1|CV734038
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|88207641|gb|CI207490.1|CI207490
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|15008509|gb|AU222897.1|AU222897
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|33685240|gb|CF313479.1|CF313479
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|55413109|gb|CV725485.1|CV725485
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|51946051|gb|CV152392.1|CV152392
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|163928575|gb|EG711160.1|EG711160
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
EST: gi|88242499|gb|CI242348.1|CI242348
EST:     CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG                         GTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA
genomic: CAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAA

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: 63 (upstream exon), 50 (downstream exon)
Score: 66

GGGTCACTCACTGATGGATCAGTGTTTGATTCTAGCTATGACAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAGgttattcctt ... ttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAAAGATACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGAT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatatcaatggccttcgcatatccaacaacctacattgttgtttttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAAAGATACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGAT
                                          tttttatct  CT-rich tract
                                       ttgtttttatctata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttattccttttccctggaatactgaacttctccatatttatccatagtccatactgaggtagcttgaatgaccaaggatgttatcaaaaataggaaatggactgtgcagttcatatcaatggccttcgcatatccaacaacctacattgttgtttttatctatagGTTGGGACCAAGGGTTACTAGGTATGTGTGTCGGTGAAAAGAGGAAGCTAAAGATACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA