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

...atgtgccatatatttttggacttttgatggttttacctggccttctgatcaagttctttttttctgagttctttttaattgattctgattcttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTTGGCTGCAGAGCAAGAGGCTCAGCAAATAGTAAATGCTGCTAGGGCTG

Basic information

species Oryza sativa
transcript LOC_Os04g51270.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g51270.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G124103_T01 (Zea mays), 3'ss of exon 1
atgtgcc-atatatttttggacttttgatggttttacctggccttc--tgatcaagttctttttttctgagttctttttaattgattctgattcttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTTGGCTGCAGAGCAAGAGGCTCAGCAAATAGTAAATGCTGCTAGGGCTG
 |||| | || ||| |||  ||   |  |  ||||   ||  ||       |  || ||| | | |     ||||   | || |||| ||          ||| |||  | |||||||||| ||||| |||||| |||| || ||||| ||| ||||||| ||||| |||||||||||||| || ||||| ||||| ||||
gtgtgtcgatttatgtttacacgcct--tttttttttttgatctgaaacagttgaggtctatctct---gattctgaattatggattttg--------cccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG

upper sequence: LOC_Os04g51270.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G124103_T03 (Zea mays), 3'ss of exon 1
atgtgccatatatttttggacttttgatggttttacctggccttctgatcaagttctttttttctgagttctttttaattgattctgattc------ttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTTGGCTGCAGAGCAAGAGGCTCAGCAAATAGTAAATGCTGCTAGGGCTG--
      |    ||| |  | |  || ||| ||  ||      || |  |    |          |||| ||| | |   ||||||||| |       ||    ||| |||  | |||||||||| ||||| |||||| |||| || ||||| ||| ||||||| ||||| |||||||||||||| || ||||| ||||| ||||  
----agctggcattgtgtgtcgatttatgtttacacgccttttttttttttgatctgaaacagttgaggtctatct--ctgattctgaattatggattttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTGGT

upper sequence: LOC_Os04g51270.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G094928_T02 (Zea mays), 3'ss of exon 1
atgtgccatatatttttggacttttga--tggttttacctggccttctgatcaagttctttttttctgagttctttttaattgattctgattcttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTTGGCTGCAGAGCAAGAGGCTCAGCAAATAGTAAATGCTGCTAGGGCTG--
||||    ||    | | |  || ||   |   |||   ||  ||         |   | | | ||||| | |   |||   |   ||  |  ||    ||| |||  |  ||||||||| ||||| ||||| ||||| |||||||| ||| ||||||| ||||| |||||||||||||| || ||||| ||||| ||||  
atgtcttgtagcgatctaggtttatgtgctccctttgtttgatctgaaacatttgaggtctatctctgattccgaatta--cggaccttttgttttgcccagGAGCTGAGGGATGGACGCGAACAGGCGCCAGAGTGGGATCCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCCGCTAGAGCTGGT

upper sequence: LOC_Os04g51270.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G124103_T02 (Zea mays), 3'ss of exon 1
atgtgccatatatttttggacttttgatggttttacctggccttctgatcaagttctttttttctgagttctttttaattgattctgattc------ttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTTGGCTGCAGAGCAAGAGGCTCAGCAAATAGTAAATGCTGCTAGGGCTG
      |    ||| |  | |  || ||| ||  ||      || |  |    |          |||| ||| | |   ||||||||| |       ||    ||| |||  | |||||||||| ||||| |||||| |||| || ||||| ||| ||||||| ||||| |||||||||||||| || ||||| ||||| ||||
----agctggcattgtgtgtcgatttatgtttacacgccttttttttttttgatctgaaacagttgaggtctatct--ctgattctgaattatggattttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG

upper sequence: LOC_Os04g51270.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G094928_T03 (Zea mays), 3'ss of exon 1
atgtgccatatatttttggacttttga--tggttttacctggccttctgatcaagttctttttttctgagttctttttaattgattctgattcttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTTGGCTGCAGAGCAAGAGGCTCAGCAAATAGTAAATGCTGCTAGGGCTG
||||    ||    | | |  || ||   |   |||   ||  ||         |   | | | ||||| | |   |||   |   ||  |  ||    ||| |||  |  ||||||||| ||||| ||||| ||||| |||||||| ||| ||||||| ||||| |||||||||||||| || ||||| ||||| ||||
atgtcttgtagcgatctaggtttatgtgctccctttgtttgatctgaaacatttgaggtctatctctgattccgaatta--cggaccttttgttttgcccagGAGCTGAGGGATGGACGCGAACAGGCGCCAGAGTGGGATCCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCCGCTAGAGCTG

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|58694530|gb|CK083217.1|CK083217
EST:     TCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: TCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|88760409|gb|CI769965.1|CI769965
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|86503200|gb|CI145833.1|CI145833
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCCATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|33659779|gb|CF282392.1|CF282392
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAG                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|88689212|gb|CI732788.1|CI732788
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|8528073|gb|AU092888.1|AU092888
EST:     AAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: AAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|55433931|gb|CV730082.1|CV730082
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAG                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|87004212|gb|CI296754.1|CI296754
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAG                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|11863327|gb|AU066028.2|AU066028
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAG                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|88765387|gb|CI774481.1|CI774481
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|33808450|gb|CF330112.1|CF330112
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|14192429|gb|AU184640.1|AU184640
EST:     ATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAG                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: ATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|55438738|gb|CV732667.1|CV732667
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|700675|gb|D46966.1|D46966
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|8858728|gb|AU096046.1|AU096046
EST:     GAAATNTCGTCGCTACCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCANCAATTGTT
genomic: GAAATCTCGTCGCT-TCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|88736650|gb|CI760158.1|CI760158
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|88345939|gb|CI632412.1|CI632412
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAG                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|163923261|gb|EG711070.1|EG711070
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|568132|gb|D38967.1|D38967
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|23514183|gb|BU673507.1|BU673507
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|568319|gb|D39163.1|D39163
EST:     ATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAG                         CAGCACAAAGATGGACGCAAANAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: ATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|58593666|gb|CF991974.1|CF991974
EST:     GAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGGCGG                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGT
genomic: GAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTC-GCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGT
EST: gi|8857393|gb|AU094711.1|AU094711
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|88721963|gb|CI745473.1|CI745473
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAG                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|88738132|gb|CI761640.1|CI761640
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAATGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|2280867|gb|C25362.1|C25362
EST:     ATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAG                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: ATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|88288582|gb|CI663371.1|CI663371
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAG                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|55408685|gb|CV721061.1|CV721061
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|25806235|gb|CA762196.1|CA762196
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCCCGCAG                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|218502328|gb|FG952293.1|FG952293
EST:     TTCGAGTC-TCTCTCTCGCAG                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: TTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|88360665|gb|CI647675.1|CI647675
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAG                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|88688869|gb|CI732445.1|CI732445
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|8858718|gb|AU096036.1|AU096036
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|88361918|gb|CI682092.1|CI682092
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|38468888|gb|CF953019.1|CF953019
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAG                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|2276040|gb|C25017.1|C25017
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAG                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|88728180|gb|CI751690.1|CI751690
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|88690585|gb|CI734664.1|CI734664
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|27547337|gb|CA767335.2|CA767335
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGGGTCTTCTCTCTCGCAG                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|163925475|gb|EG715368.1|EG715368
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAG                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
EST: gi|88581807|gb|CI699017.1|CI699017
EST:     CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCT--C-G                         CAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT
genomic: CGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTT

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), 73 (downstream exon)
Score: 105

GGAACCCATGGGCGAGCAGCACGAAGGAAGATAGATTTTCCCCATCGAAATCTCGTCGCTTCCCCCGGGTTCGATTCGAGTCTTCTCTCTCGCAGgtatggtgaa ... cttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTTGGCTGCAGAGCAAGAGGCTCAGCAAATAGTAAATGCTGCTAGGGCTG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatcaagttctttttttctgagttctttttaattgattctgattcttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTTGGCTGCAGAGCAAGAGGCTCAGCAAATAGTAAATGCTGCTAGGGCTG
                                     ttctgat  putative branch site (score: 105)
                                     ttctgattcttccttc  CT-rich tract
                       ttctttttaattgatt  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
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atgtgccatatatttttggacttttgatggttttacctggccttctgatcaagttctttttttctgagttctttttaattgattctgattcttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTTGGCTGCAGAGCAAGAGGCTCAGCAAATAGTAAATGCTGCTAGGGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- -tgccata
- - - - - - - - - - - -ttgatgg
- - - - - - - - - - - - - - - - -tacctgg
- - - - - - - - - - - - - - - - - - - - ccttctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gattctg