Skip to another splice site:
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 5'  3'   		3  
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 5'  3'   		5  
 5'  3'   		6  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctatgccaaattctttgtttttatagtctaagctgttgccacaatttttttttgattctctatgctgcttacatatttgcccaccctctccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAGCACACTAATAGTGCTGCTACAG

Basic information

species Zea mays
transcript GRMZM2G151863_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G151863_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g28300.1 (Oryza sativa), 3'ss of exon 4
--------------tctatgccaaattctttgtttttatagtctaagctgttgccacaatttttttttgattctctatgctgcttacatatttgcccaccctctccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAGCACACTAATAGTGCTGCTACAG
              | |||||||| || |||  ||| ||    ||| ||  |   | || ||   |  | || | ||||||| | | || | |       |||        |||||| | |||||||||||||| || ||||| ||||||||||||||||||||||||||||| |||||||||||||
atgtttggtatatgtatatgccaa-ttatttaatttcat---ttaatct--tataagaaattacatgggtttgtatatgctgttaatatgtatatttgttctc--------aagGTACTATCAACTGGACTTGGTAGGATAGTCCCCAACTTGATATCAAGGAAGCACACTAACAGTGCTGCTACAG

upper sequence: GRMZM2G151863_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA09G38640.1 (Glycine max), 3'ss of exon 4
-----tctatgcc-aaattctttgtttttatagtctaagctgttgccacaatttttttttgattctctatgctgcttacatatttgcccaccctctccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAGCACACTAATAGTGCTGCTACAG
      ||||  |    | || |   | |  |   |||  ||||  ||  ||  |  |   |     | |         | ||||      | | ||   ||  ||||| | || || || |||||||| || ||||| || ||||| || |||||||| || ||||||||||||||||
agagcactatttctgggtgctctaactcttcatattaa--tgttatcaggatactgataaaaaaaaat-tatcaggattaaatttattgtacgtgtc---aattagGTACTTTCTACAGGGCTTGGCAGGATTGTGCCTAATTTGATTTCTAGGAAGCATACAAATAGTGCTGCTACAG

upper sequence: GRMZM2G151863_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA18G47670.1 (Glycine max), 3'ss of exon 4
-------------------------------------------------------------------tctatgccaaattctt-tgtttttatagtctaagctgttgc----cacaattttt-----ttttgattctctatgct---gcttacatatttgcccaccctctcc---ccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAGCACACTAATAGTGCTGCTACAG
                                                                   |   |      || || || |   || || |  ||   | |    ||| |||| |      | | | | |  ||  |   | |  ||   ||       || | |    |||  ||||| | || || || |||||||| || ||||| || ||||| || |||||||| || ||||||||||||||||
gtaagtgcaacatgggatgcatttttggttttaatatttctgcattgttgtttctcattattggatgtactttttgtgttgttgtgatggaatggtttgcgcaactacagagcactatttctgggtgctctaacttttcatattaatgttatcaggattaaagttactgtacgtgtcaattagGTACTTTCTACAGGGCTTGGCAGGATTGTGCCAAATTTGATTTCTAGGAAGCATACGAATAGTGCTGCTACAG

upper sequence: GRMZM2G151863_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT5G36290.1 (Arabidopsis thaliana), 3'ss of exon 5
-tctatgccaaattctttgtttttatagtctaagctgttgccacaatttttttttgattctctatgctgcttacatatt-tgcccaccctctccccaaca-agGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAGCACACTAATAGTGCTGCTACAG
 |   |   |||||  |||| | |||| ||     ||| |  | |||  |  |   |       |  ||  ||  | || ||      ||      |    || || | || ||||||||||| || |||||||| ||||||||||| ||||||||||| ||||||||||||||||
gtaagttgaaaattacttgtatgtatattc---attgtgggaaaaatcatcgtactacagagggtattgtctaactgttgtgatttttctgaattgagtttagATACTTTCTACTGGACTTGGTAGGATAGTGCCAAACTTGATATCGAGGAAGCACACCAATAGTGCTGCTACAG

upper sequence: GRMZM2G151863_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv04s0023g00380.t01 (Vitis vinifera), 3'ss of exon 4
--tctatgccaaattctttgtttttatagtctaagctgttgccacaatttttttttgattctctatgctgcttacatatttgcccaccctctccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAGCACACTAATAGTGCTGCTACAG
  | |     |  |||      | |  ||    |  | ||     || ||||   | ||||||  |  ||   |  |    |       ||   ||||  ||||| | || ||||| |||||||| || ||||| || ||||||||||||||||| || |||||||| |||||||
ggttttctgtagtttcagaaactatgaagcacgatttattatt--aagttttcccttattctcagttttgtcaaggtcaaagttgttgttcatgccaattagGTACTCTCCACTGGGCTTGGCAGGATTGTGCCAAATTTGATATCAAGGAAGCATACAAATAGTGCAGCTACAG

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|76284808|gb|DV024376.1|DV024376
EST:     TGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTGGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: TGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|32915629|gb|CF020441.1|CF020441
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAAT
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAAT
EST: gi|101393554|gb|EB818709.1|EB818709
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|26558705|gb|CA830940.1|CA830940
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|211094829|gb|FL156527.1|FL156527
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|71433454|gb|DR814504.1|DR814504
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|148955189|gb|EC900711.2|EC900711
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|50336724|gb|CO531850.1|CO531850
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|93014798|gb|EB640318.1|EB640318
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|211099771|gb|FL156546.1|FL156546
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAG
EST: gi|211097301|gb|FL156540.1|FL156540
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATC
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATC
EST: gi|74242669|gb|DT650583.1|DT650583
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|71431955|gb|DR813005.1|DR813005
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|74242877|gb|DT650791.1|DT650791
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|211089887|gb|FL156497.1|FL156497
EST:     CAAGTCAAWTGTGTTGTCAGGTGCMCTATCTGCGCCTTTATGTGATGACC                         GTATTGTCAACTGGACTTGGCAGAATAGTGCC-AACTTGATATCA
genomic: CAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGC-TTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCA
EST: gi|71757648|gb|DR955585.1|DR955585
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|14243778|gb|BG841491.2|BG841491
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|211089882|gb|FL156492.1|FL156492
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTG
EST: gi|22473434|gb|BU037914.1|BU037914
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|71417678|gb|DR804170.1|DR804170
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|78073959|gb|DV502393.1|DV502393
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|71775511|gb|DR973389.1|DR973389
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|76291625|gb|DV031193.1|DV031193
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|16925694|gb|BM078762.1|BM078762
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|211089885|gb|FL156495.1|FL156495
EST:     CAAGTCAAATTGTGGTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCCACTTGATATCAAGGA-G
genomic: CAAGTCAA-TTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|89248372|gb|DY620158.1|DY620158
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|211097295|gb|FL156534.1|FL156534
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCC-AACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|211099772|gb|FL156547.1|FL156547
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCC-AACTTGA
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGA
EST: gi|76284809|gb|DV024377.1|DV024377
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|78119849|gb|DV538233.1|DV538233
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|67010532|gb|CO439281.1|CO439281
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|211097292|gb|FL156531.1|FL156531
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|91048229|gb|EB158647.1|EB158647
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|211092354|gb|FL156512.1|FL156512
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|71770354|gb|DR968291.1|DR968291
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|211089886|gb|FL156496.1|FL156496
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTG
EST: gi|211094818|gb|FL156516.1|FL156516
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|211099770|gb|FL156545.1|FL156545
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTNGCAGAATAGTGCC-AACTTGATATCAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAG
EST: gi|211097298|gb|FL156537.1|FL156537
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTTGTCA-CTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAA
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATT-GTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAA
EST: gi|148942936|gb|EC887981.2|EC887981
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCCACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|74239215|gb|DT647129.1|DT647129
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|211087438|gb|FL156483.1|FL156483
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|211092348|gb|FL156506.1|FL156506
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAG
EST: gi|91875143|gb|EB405100.1|EB405100
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
EST: gi|86466281|gb|DY232652.1|DY232652
EST:     CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACA                         GTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG
genomic: CCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAG

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: 44 (upstream exon), 49 (downstream exon)
Score: 177

ATTGGAGATGAGACATTCATCATTGCTGCGCTGATGGCGATGCGGCACCCCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAGCACACTAATAGTGCTGCTACAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 188

ATTGGAGATGAGACATTCATCATTGCTGCGCTGATGGCGATGCGGCACCCCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAGCACACTAATAGTGCTGCTACAG


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 180

ATTGGAGATGAGACATTCATCATTGCTGCGCTGATGGCGATGCGGCACCCCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAGCACACTAATAGTGCTGCTACAG


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 192

ATTGGAGATGAGACATTCATCATTGCTGCGCTGATGGCGATGCGGCACCCCAAGTCAATTGTGTTGTCTGGTGCACTATCTGCGCTTTATGTGATGACAgtgagctatt ... ccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAGCACACTAATAGTGCTGCTACAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttttttgattctctatgctgcttacatatttgcccaccctctccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAGCACACTAATAGTGCTGCTACAG
                     tgcttac  putative branch site (score: 192)
                               tttgcccaccctctcc  putative PPT
                        ttacatattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tctatgccaaattctttgtttttatagtctaagctgttgccacaatttttttttgattctctatgctgcttacatatttgcccaccctctccccaacaagGTATTGTCAACTGGACTTGGCAGAATAGTGCCCAACTTGATATCAAGGAAGCACACTAATAGTGCTGCTACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
-ctatgcc
- - - - - - - - tgttttt
- - - - - - - - - - - - - - - - gctgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctgctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccaccc