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

...ttgctgccagcgttgtgtaatgtttttgcgtgttaatggtcacttagtggtctgatggtcatttgctatggtgtaatggtcgatctgtttggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAAGAAGAACAACTGCTTCCTCGTGAAGCAGTTTGGAAACAGCAATGCCAAG

Basic information

species Oryza sativa
transcript LOC_Os02g57540.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g57540.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G394827_T07 (Zea mays), 3'ss of exon 1
ttgctgccagcgttgtgtaatgtttttgcgtgttaatggtcacttagtggtctgatggtcatttgctatggtgtaatggtcgatctgt-ttggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAAGAAGAACAACTGCTTCCTCGTGAAGCAGTTTGGAAACAGCAATGCCAAG------
      | |  |||  | | |   || ||     ||  |||       | |   |  |  ||  |  ||     | | | |  |   | ||| | || |||    || |||||||| || ||||| | |  | || ||||| || |||||| ||||||||||| |||||| ||||||||||| || ||| |||||||||||      
-----tcaaatgttccgcattagctt-gcaacccaa-agtcttccgcagatagtaatgatatacggaatatcacatttggcagttgatattgattatttaggcgaagGGAAATGGCAACCGTTCCAGGGGATCTGATCTGGCAGGTTGTGAGGAAGAACAACTCCTTCCTTGTGAAGCAGTTCGGCAACGGCAATGCCAAGGTGCAG

upper sequence: LOC_Os02g57540.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G088060_T03 (Zea mays), 3'ss of exon 1
----------ttgctgccagcgttgtgtaatgtttttgcgtgttaatggtcacttagtggtctgatggtcatttgctatggtgtaat------------ggtcgatctgtttggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAAGAAGAACAACTGCTTCCTCGTGAAGCAGTTTGGAAACAGCAATGCCAAG
           |||  | |||     ||||   ||   |   |     |    | |||  |||    ||    || |     | |||             || ||| | || |   || |||    || ||||||||||| ||||| | |  | || ||||| ||||||||| ||||||||||| |||||| |||||||||                     
ttgcttcctcatgcaacaagcaac-cgtaactattccccagatggtcaggtgatcagttttctccctgtttaatgttgcaagggaatctcacatttgccagTTGATATTTTCGACTATTTAGGCGAAGGGAAATGGCGACCGTTCCAGGGGATCTGATCTGGCAGATTGTGAGGAAGAACAACTCCTTCCTGGTGAAGCAG---------------------

upper sequence: LOC_Os02g57540.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G088060_T02 (Zea mays), 3'ss of exon 2
ttgctgccagcgttgtgta-atgtttttgcgtgttaatggtcacttagtggtctgatggtcatttgctatg-gtgtaatggtcgatctgtttggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAAGAAGAACAACTGCTTCCTCGTGAAGCAGTTTGGAAACAGCAATGCCAAG
   | |  |   ||    | ||| |   | |  | | |  || |   ||    || ||               | |    || ||| | || |   || |||    || ||||||||||| ||||| | |  | || ||||| ||||||||| ||||||||||| |||||| |||||||||||||| ||| |||||||||||
-aaccgtaactattccccagatggtcaggtg-atcagttttctccctgtttaatgttgcaagggaatctcacatttgccagttgatattttcgactatttagGCGAAGGGAAATGGCGACCGTTCCAGGGGATCTGATCTGGCAGATTGTGAGGAAGAACAACTCCTTCCTGGTGAAGCAGTTTGGCAACGGCAATGCCAAG

upper sequence: LOC_Os02g57540.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G394827_T03 (Zea mays), 3'ss of exon 1
ttgctgccagcgttgtgtaatgtttttgcgtgttaatggtcacttagtggtctgatggtcatttgctatggtgtaatggtcgatctgt-ttggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAAGAAGAACAACTGCTTCCTCGTGAAGCAGTTTGGAAACAGCAATGCCAAG-------------------------------------------
                                          |  ||     | ||| | ||  |  ||     | | | |  |   | ||| | || |||    || |||||||| || ||||| | |  | || ||||| || |||||| ||||||||||| |||||| ||||||||||| || ||| |||||||||||                                           
------------------------------------------cgcagatag-taatgat-atacggaatatcacatttggcagttgatattgattatttaggcgaagggaaatggcaaccgttccaggggatctgatctggcagGTTGTGAGGAAGAACAACTCCTTCCTTGTGAAGCAGTTCGGCAACGGCAATGCCAAGGTGCAGTTCACCAAGGAGCCGAACAACCTCTACAACATCCACT

upper sequence: LOC_Os02g57540.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G394827_T02 (Zea mays), 3'ss of exon 1
-ttgctgccagcgttgtgtaatgtttttgcgtgttaatggtcacttagtggtctgatggtcatttgctatggtgtaatggtcgatctgt-ttggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAAGAAGAACAACTGCTTCCTCGTGAAGCAGTTTGGAAACAGCAATGCCAAG
  |    | |  |||  | | |   || ||     ||  |||       | |   |  |  ||  |  ||     | | | |  |   | ||| | || |||    || |||||||| || ||||| | |  | || ||||| || |||||| ||||||||||| |||||| ||||||||||| || ||| |||||||||||
actaagtcaaatgttccgcattagctt-gcaacccaa-agtcttccgcagatagtaatgatatacggaatatcacatttggcagttgatattgattatttagGCGAAGGGAAATGGCAACCGTTCCAGGGGATCTGATCTGGCAGGTTGTGAGGAAGAACAACTCCTTCCTTGTGAAGCAGTTCGGCAACGGCAATGCCAAG

upper sequence: LOC_Os02g57540.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G394827_T05 (Zea mays), 3'ss of exon 1
-------------------ttgctgccagcgttgtgtaatgtttttgcgtgttaatggtcacttagtggtctgatggtcatttgctatggtgtaatggtcgatctgt-ttggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAAGAAGAACAACTGCTTCCTCGTGAAGCAGTTTGGAAACAGCAATGCCAAG
                    |    | |  |||  | | |   || ||     ||  |||       | |   |  |  ||  |  ||     | | | |  |   | ||| | || |||    || |||||||| || ||||| | |  | || ||||| || |||||| ||||||||||| |||||| |||||||||||                   
tctatctgtcttagaaatactaagtcaaatgttccgcattagctt-gcaacccaa-agtcttccgcagatagtaatgatatacggaatatcacatttggcagTTGATATTGATTATTTAGGCGAAGGGAAATGGCAACCGTTCCAGGGGATCTGATCTGGCAGGTTGTGAGGAAGAACAACTCCTTCCTTGTGAAGCAGTTC------------------

upper sequence: LOC_Os02g57540.1 (Oryza sativa), 3'ss of exon 1
lower sequence: AT2G19730.2 (Arabidopsis thaliana), 3'ss of exon 1
--------------------------------------------------------------------------ttgctgccagcgttgtgtaatg--tttttgcgtgttaatggtcacttagtggtctgatggt-catttgctatggtgtaatggt-cgatctgtttggtgatgtagCTACAG---CGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAAGAAGAACAACTGCTTCCTCGTGAAGCAGTTTGGAAACAGCAATGCCAAG-
                                                                           ||  |  |   |  |  |  |   | |   ||  ||    | |   |  | |||| |  |  || || | | |  |  | ||   || | |   ||| || || ||       ||||||||||| ||||| |  |  ||| |||||||||| |||||||| |||||||| ||| | ||||||||||| || |   | ||  | ||| 
gtgagcttagtattactctcaattgttctcagttcagtatgtcttgattttcgtagcttagatgatctgattttgtgtagatattttgattcagcgagctctatagtagtagcctttaggaatcgatctgttaatgtatgtgttgttgattggtagtatcatttttggtgtggtgaaggtagGTATTTGAAATGGCGACAGTTCCAGGACAATTGATCTGGGAGATCGTGAAGAACAACAACTGTTTCTTGGTGAAGCAGTTCGGTAGAGGAAACTCTAAGG

upper sequence: LOC_Os02g57540.1 (Oryza sativa), 3'ss of exon 1
lower sequence: AT2G19730.3 (Arabidopsis thaliana), 3'ss of exon 1
-------------------------------------------ttgctgccagcgttgtgtaatg--tttttgcgtgttaatggtcacttagtggtctgatggt-catttgctatggtgtaatggt-cgatctgtttggtgatgtagCTACAG---CGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAAGAAGAACAACTGCTTCCTCGTGAAGCAGTTTGGAAACAGCAATGCCAAG
                                            ||  |  |   |  |  |  |   | |   ||  ||    | |   |  | |||| |  |  || || | | |  |  | ||   || | |   ||| || || ||       ||||||||||| ||||| |  |  ||| |||||||||| |||||||| |||||||| ||| | ||||||||||| || |   | ||  |    
gttcagtatgtcttgattttcgtagcttagatgatctgattttgtgtagatattttgattcagcgagctctatagtagtagcctttaggaatcgatctgttaatgtatgtgttgttgattggtagtatcatttttggtgtggtgaagGTAGGTATTTGAAATGGCGACAGTTCCAGGACAATTGATCTGGGAGATCGTGAAGAACAACAACTGTTTCTTGGTGAAGCAGTTCGGTAGAGGAAACTCT---

upper sequence: LOC_Os02g57540.1 (Oryza sativa), 3'ss of exon 1
lower sequence: AT2G19730.1 (Arabidopsis thaliana), 3'ss of exon 1
--------------------------------------------------------------------------ttgctgccagcgttgtgtaatg--tttttgcgtgttaatggtcacttagtggtctgatggt-catttgctatggtgtaatggt-cgatctgtttggtgatgtagCTACAG---CGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAAGAAGAACAACTGCTTCCTCGTGAAGCAGTTTGGAAACAGCAATGCCAAG
                                                                           ||  |  |   |  |  |  |   | |   ||  ||    | |   |  | |||| |  |  || || | | |  |  | ||   || | |   ||| || || ||       ||||||||||| ||||| |  |  ||| |||||||||| |||||||| |||||||| ||| | ||||||||||| || |   | ||  |    
gtgagcttagtattactctcaattgttctcagttcagtatgtcttgattttcgtagcttagatgatctgattttgtgtagatattttgattcagcgagctctatagtagtagcctttaggaatcgatctgttaatgtatgtgttgttgattggtagtatcatttttggtgtggtgaagGTAGGTATTTGAAATGGCGACAGTTCCAGGACAATTGATCTGGGAGATCGTGAAGAACAACAACTGTTTCTTGGTGAAGCAGTTCGGTAGAGGAAACTCT---

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|88689121|gb|CI732697.1|CI732697
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88760242|gb|CI769798.1|CI769798
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88391584|gb|CI600773.1|CI600773
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88346738|gb|CI657289.1|CI657289
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88326143|gb|CI651198.1|CI651198
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88690877|gb|CI734956.1|CI734956
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88732363|gb|CI755540.1|CI755540
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88423130|gb|CI613431.1|CI613431
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88691606|gb|CI733684.1|CI733684
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|58603959|gb|CK014487.1|CK014487
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGATCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88357145|gb|CI616032.1|CI616032
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGGGGTTTCATCGTCTCCG                         CTACAGGGAAATGGCGAGGGTTCCGGAGCCTTGGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88328803|gb|CI646874.1|CI646874
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCTGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88739317|gb|CI762825.1|CI762825
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88308139|gb|CI647966.1|CI647966
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88691151|gb|CI735230.1|CI735230
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88349800|gb|CI634335.1|CI634335
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88721231|gb|CI744530.1|CI744530
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88734215|gb|CI757723.1|CI757723
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88695072|gb|CI739110.1|CI739110
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88718260|gb|CI741349.1|CI741349
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88762491|gb|CI772047.1|CI772047
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|29640294|gb|CB645303.1|CB645303
EST:     ACCACCCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88745482|gb|CI768842.1|CI768842
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|58600728|gb|CK011256.1|CK011256
EST:     GCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGATCTGGGAGATTGTGAA
genomic: GCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|33657709|gb|CF280323.1|CF280323
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|58594105|gb|CF992413.1|CF992413
EST:     ACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGATCTGGGAGATTGTGAA
genomic: ACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88324787|gb|CI657659.1|CI657659
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|33655117|gb|CF277731.1|CF277731
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|33810633|gb|CF331203.1|CF331203
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88725065|gb|CI748324.1|CI748324
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|117251389|gb|CT844143.1|CT844143
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGATCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88328788|gb|CI646858.1|CI646858
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCTGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|58594577|gb|CF992885.1|CF992885
EST:     CCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCGCG                         GTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGATCTGGGAGATTGTGA
genomic: CCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTC-CGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGA
EST: gi|88335145|gb|CI658152.1|CI658152
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88311934|gb|CI577540.1|CI577540
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88691650|gb|CI733728.1|CI733728
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88406482|gb|CI598975.1|CI598975
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88743906|gb|CI765342.1|CI765342
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88733530|gb|CI756707.1|CI756707
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|33660300|gb|CF291267.1|CF291267
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|38478936|gb|CF963069.1|CF963069
EST:     AGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGAGGGTTCCGGAGCCTTTGATCTGGGAGATTGTGAA
genomic: AGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88328097|gb|CI649899.1|CI649899
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88332603|gb|CI651763.1|CI651763
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88400238|gb|CI590928.1|CI590928
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88399265|gb|CI618455.1|CI618455
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|87030562|gb|CI254991.1|CI254991
EST:     CGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGACCCTTTGTTCTGGGAGATTGTGAA
genomic: CGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
EST: gi|88406146|gb|CI593926.1|CI593926
EST:     ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCG                         CTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA
genomic: ACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAA

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: 74 (upstream exon), 75 (downstream exon)
Score: 183

AAAGCGAGCCTCCGCGCCGCCGTCGCACCGTTCCGCAGGCCGCAGCCACCACCACGCCACCGGAGCACAGCGACGCGCCGCCGCGGCTTCATCGTCTCCGgtgagttcga ... ggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAAGAAGAACAACTGCTTCCTCGTGAAGCAGTTTGGAAACAGCAATGCCAAG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtggtctgatggtcatttgctatggtgtaatggtcgatctgtttggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAAGAAGAACAACTGCTTCCTCGTGAAGCAGTTTGGAAACAGCAATGCCAAG
    gtctgat  putative branch site (score: 183)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgctgccagcgttgtgtaatgtttttgcgtgttaatggtcacttagtggtctgatggtcatttgctatggtgtaatggtcgatctgtttggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAAGAAGAACAACTGCTTCCTCGTGAAGCAGTTTGGAAACAGCAATGCCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
-tgctgcc
- - - - - - - -tgtaatg
- - - - - - - - - - - - -ttgcgtg
- - - - - - - - - - - - - - - - - - - - - - - - - -ctgatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catttgc