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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acacacaatgatgttgagaatggaagttgaattgcactgctaggagtggtgccctgaagttatattttgacctgtatatgcatcatgacctttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCATTGAATGCCACTAAAGCTGCTGTGGAAGAGGGTATTGTACCAG

Basic information

species Oryza sativa
transcript LOC_Os10g32550.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G416120_T01 (Zea mays), 3'ss of exon 12
-----------------------------------------acacacaatgatgttgagaatggaagttgaattgcactgctaggagtggtgccctgaagttatattttgacctgtatatgcatcatgacctttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCATTGAATGCCACTAAAGCTGCTGTGGAAGAGGGTATTGTACCAG
                                           |||   |  ||||    || | | ||| | |  |||| ||   ||||  | ||||  ||   |  |    ||  ||||  |     ||||||||  |||| ||||||||||| ||||| |||||||||||||||||||||||||||||||||||| ||||||| |||||||||||||| |||||||| ||||||||||
gtgaggttattgacctactgtatgtatttacgaatggtagattacatgttcttgttttatatcgtaattgtaata-actgttacctgtggctctctgatatttcctgattttgtgcctatgtgt-gcatcctttcct--agATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG

upper sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G111477_T02 (Zea mays), 3'ss of exon 1
-----------------------------------acacacaatgatgttgagaatggaagttgaattgcactgctaggagtggtgccctgaagttatattttgacctgtatatgcatcatgacctttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCATTGAATGCCACTAAAGCTGCTGTGGAAGAGGGTATTGTACCAG
                                   | |  | ||| | |  |  ||     ||   ||| | | ||   |   ||| |        || |  |||  |   | |||    || |   |     |||| || ||||| || ||||| |||||||||||||||||||||||||||||||||||| ||||||| |||||||||||||| |||||||||||||||||||
gtgagattactgacctttgtatgtttactaatggcagattccatgtt-tcaaacattttttttctgttgtaatactgttacctgtgtctgtcctccatttgctgattt---tgtgc-ctgtgcctcctttcctagATTGGGGGAGCTAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGTATTGTACCAG

upper sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GLYMA20G19980.1 (Glycine max), 3'ss of exon 13
--acacacaatgatgttgagaatggaagttgaattgcactgctaggagtggtgccctgaagttatattttg---acctgtatatgcatcatgacctttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCATTGAATGCCACTAAAGCTGCTGTGGAAGAGGGTATTGTACCAG
  |  |  | |  |||       |  | | |  |  | ||| |  ||      | |||| ||| |    ||   |  |  | ||  |  |   || ||  | ||||| ||||||||||||||||||||||||||||||||||||||||||||||| |||||||| ||||| ||||| |||||||| || ||||| || || || |
gtatgcctacttgtgtcattttggttaatggtttatccctggt--gaacatcccactgaggttctgcaatggaaaaattgacatttaaaactgcccttt-tgcagATTGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACTGATGCATTAAATGCAACTAAGGCTGCTGTAGAGGAGGGCATAGTGCCTG

upper sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GLYMA10G25630.1 (Glycine max), 3'ss of exon 13
-acacacaatgatgttgagaatggaagttgaattgcactgctaggagtggtgccctgaagttatattttgacctgtatatgcatcatgac--ctttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCATTGAATGCCACTAAAGCTGCTGTGGAAGAGGGTATTGTACCAG
      |  |   |  |  | ||  |  |    | | ||| |  ||      |  ||  ||| |    || |     ||    |    ||  |  | || ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||| || ||||| ||||| |||||||| || || || |||||| |||
gggggccgctacggccgctattgacaactatgat-ccctggt--gaacatccctgtggggttctgcaatggcaaaattaacatttgaaactgcccttctgcagATTGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCCTTAAATGCAACTAAGGCTGCTGTAGAGGAAGGCATTGTATCAG

upper sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GLYMA20G33910.1 (Glycine max), 3'ss of exon 13
--acacacaatgatgttgagaatggaagttga-attgcactgctaggagtggtgccctgaagttatattttgacctgtatatgcatcatgacctt--tcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCATTGAATGCCACTAAAGCTGCTGTGGAAGAGGGTATTGTACCAG
        | |   ||| |   ||   | |   |      |    ||        |||   ||| | |  |||      ||         ||||   |  | ||||| |||||||||||||| |||||||||||||||||||||||||||||||||||||| || ||||| || || || ||||| || ||||| || ||||| |
gtttgtttatttgagtttaccttgcttgctattaggattttatctggcacttcatcctatggttttgtcatgataaaactaacatctgaaacctcacttttgcagATTGGAGGAGCCAGTGAGGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCCTTAAATGCAACCAAGGCAGCTGTAGAGGAGGGCATAGTACCTG

upper sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GLYMA10G33680.1 (Glycine max), 3'ss of exon 13
--acacacaatgatgttgagaatggaagttgaattgcactgctaggagtggtgccctgaagttatattttgacctgtatatgcatcatgacctt--tcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCATTGAATGCCACTAAAGCTGCTGTGGAAGAGGGTATTGTACCAG
        | |   ||| |   ||   | ||    |   |    || |      | |   ||| | |  |||      ||         |||||  |  | ||||| |||||||||||||| |||||||||||||||||||||||||||||||||||||| || ||||| || || || ||||| || ||||| || |||||||
gtttgtttatttgagtttaccttgcttgctgttaagtcttatctggtgcttcatcatatggttttgtcatgataaaattaacatctgaaaccttacttttgcagATTGGAGGAGCCAGTGAGGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCCTTAAATGCAACCAAGGCAGCTGTAGAGGAGGGCATAGTACCAG

upper sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 13
lower sequence: AT2G33210.1 (Arabidopsis thaliana), 3'ss of exon 12
acacacaatg-atgttgagaatggaagttgaattgcactgctaggagtggtgccctgaagttatattttgacctgtatatgcatcatgacctttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCATTGAATGCCACTAAAGCTGCTGTGGAAGAGGGTATTGTACCAG
      |||| |         || |  |   | |     ||||  | ||      | |  |||| |  | |  |  | ||   ||||     ||  |  |||| |||||||| |||||  | |||||| |||| ||||| |||||||| || |||||  | |||||||||||||| || || || ||||||||||| ||||
----gtaatgtacacctcttgtgaacatcagactaataggctattaatg-cattattagtttat-tactaatgtcgagattactcatatgggttttt--agATTGGAGGAGCAAGTGAGACAGAAGTTAGTGAAAAGAAAGATAGAGTAACGGATGCTCTAAATGCCACTAAAGCAGCCGTAGAGGAGGGTATTGTTCCAG

upper sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 13
lower sequence: AT3G23990.1 (Arabidopsis thaliana), 3'ss of exon 11
------acacacaatgatgttgagaatggaagttgaattgcactgctaggagtggtgccctgaa-gttatattttgacctgtatatgcatcatgacctttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCATTGAATGCCACTAAAGCTGCTGTGGAAGAGGGTATTGTACCAG
       ||    || |||||     ||| |||    ||  | |  ||| ||    |   | |  ||  | || | || | |  |   |  ||    |||     |||| |||||||| |||||||||||||||||||||||||| || |||||||||||||| ||||||||||||||||| || || |||||||||||| ||||||
gttagtccatgttataatgttt----tgggagtc---ttagaatcatagcagcctggttgtaagtgtcttgttataacttctggagcta--attgtgttt-----agATTGGAGGAGCAAGTGAAGCTGAAGTTGGTGAGAAGAAAGACAGAGTGACAGATGCTTTGAATGCCACTAAAGCAGCAGTTGAAGAGGGTATTTTACCAG

upper sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 13
lower sequence: Vv05s0051g00340.t01 (Vitis vinifera), 3'ss of exon 13
-------------------------------------acacacaatgatgttgagaatggaagttgaattgcactgctaggagtggtgccctgaagttatattttgacctgtatatgcatcatgac------ctttcct--acagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCATTGAATGCCACTAAAGCTGCTGTGGAAGAGGGTATTGTACCAG
                                     |  |    ||| | |   ||   | |    | || |||| ||       |     | | |  ||| | ||  | ||||   ||  ||        ||| |||   ||||| |||||||| ||||||||||||||| |||||||||| ||||| || ||||||||  | ||||| ||||| || ||||| ||||| || ||||||||||
gtctgtatcaatttacaaatccccaacattactgtctaggcttgttgaggctctaaactcaggagctactgtactggtactcagattcatggggaatgttatctagatatatataaaaatggtggaaaattgcttccctttgcagATAGGAGGAGCTAGTGAAGCTGAAGTTAGTGAGAAGAAAGATAGGGTTACAGATGCTCTAAATGCTACTAAGGCAGCTGTAGAAGAAGGAATTGTACCAG

upper sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 13
lower sequence: PP1S44_339V6.1 (Physcomitrella patens), 3'ss of exon 12
---------------------------------acacacaatgatgttgagaatggaagttgaattgcactgctaggagtggtgccctgaagttatattttgacct-gtatatgcatcatgacctttc-------ctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCATTGAATGCCACTAAAGCTGCTGTGGAAGAGGGTATTGTACCAG
                                 | | | ||| |  ||     ||||  |||   | ||     |   |||  |  |||||   || |    |    ||  |   |   | | | | |        |  ||||||||||| | |||||||  |||||   |||||| || ||| | || || ||||| ||||||||||||||||| |||||||||||||| |||||||| |
gtctgcataatatcatacggccccttcttttaaataaagaattacattatttttggatattgtccttcatcttcaatcgtgtagttctgaaaaaatgtacaaatagagtgaagtgaggctaatcctacaatgcgattgtagATCGGAGGAACTAGTGAAGTGGAAGTCAATGAGAAAAAAGATCGTGTAACGGATGCCTTGAATGCCACTAAAGCAGCTGTGGAAGAGGGCATTGTACCCG

upper sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 13
lower sequence: PP1S52_245V6.1 (Physcomitrella patens), 3'ss of exon 13
--------acacacaatga-tgttgagaatggaagttgaattgcactgctaggagtggtgc-cctgaagttat-attttgacctgtatatgcatcatgacctttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCATTGAATGCCACTAAAGCTGCTGTGGAAGAGGGTATTGTACCAG
         ||    | |  |||| |   |   |||  |    || ||  ||   |||    |||| | |||    | ||    || |     | ||    ||   | |||||||||||||| || |||| ||| ||  |||| ||||| ||| | || || |||||| ||||||| |||||||||||||| || ||||| |||||||| |
gtaaggatccatctgaagcctgttcatcgttccagtctatgatcattgg-agatatggcattcctgcaattaccgatgtgttgggtttgaaacttatatgattcatttcagATCGGAGGAGCAAGCGAAGTTGAGGTGAGTGAAAAGAAAGATCGTGTTACTGATGCACTGAATGCTACTAAAGCTGCTGTCGAGGAGGGGATTGTACCTG

upper sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 13
lower sequence: PP1S378_9V6.2 (Physcomitrella patens), 3'ss of exon 12
-----------------------------acacacaatgatgttgagaatggaagttgaattgcactgctaggagtggtgccctgaag-ttatattttgacctgtatatg-catcatgaccttt------cctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCATTGAATGCCACTAAAGCTGCTGTGGAAGAGGGTATTGTACCAG
                                     |||   ||| | |    |    | | || |  |    || |       |   ||| | ||| |  ||||  ||   | ||  | ||       | ||||||| |||||||| ||||||| ||| ||| |||||||||| ||  | || || ||||||||||||||||| ||||| ||||| || ||||| ||||| || |
gtatatcagtcatcctaatttaaatagttgtctcgtttgacaatgaaatttattggcacactacaatagtgcctgtagcatttcaagccttaaactttaaattgtaagtgattttatttctttctttgtgcttacagATTGGAGGAGCTAGTGAAGTTGAGGTTAGTGAGAAGAAAGACCGTGTTACTGATGCATTGAATGCCACCAAAGCCGCTGTTGAGGAGGGCATTGTTCCTG

upper sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 13
lower sequence: PP1S149_289V6.1 (Physcomitrella patens), 3'ss of exon 12
---------------acacacaatgatgttgagaa-tggaagttgaattgcactgctaggagtggtgccctgaagttatatt-ttgacctgtatatgcatcatgacctttccta----cagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCATTGAATGCCACTAAAGCTGCTGTGGAAGAGGGTATTGTACCAG
                ||   |    | |     | | | | | || |||||     ||   ||  | |||||     |||| ||  | |  | ||  ||  ||   |||  ||     ||||||||||||| |||||||  || ||    |||||||| ||  | || || ||||||||||| ||||||||||||||||| || ||||||||||| || |
gtatatccatgtacttcaattatctgtctcatttactcgtaatggatttgcatctgcagtt-tgcagtcctgattcgttattattttcgttgaaattgattttggttttttataattctagATCGGAGGAGCTAGTGAAGTCGAGGTAAACGAGAAGAAAGACCGTGTAACTGATGCATTGAACGCCACTAAAGCTGCTGTTGAGGAGGGTATTGTTCCTG

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|218485224|gb|FG951291.1|FG951291
EST:     AGCTACAGGAGCGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTAAAG                         ATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAGgtgaggttca ... tttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|33795638|gb|CF323689.1|CF323689
EST:     AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAG                         ATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAGgtgaggttca ... tttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|58675082|gb|CK063769.1|CK063769
EST:     AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAG                         ATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAA
genomic: AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAGgtgaggttca ... tttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAA
EST: gi|27554443|gb|CA998343.1|CA998343
EST:     AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAG                         ATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAGgtgaggttca ... tttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|55411061|gb|CV723437.1|CV723437
EST:     AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAG                         ATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAGgtgaggttca ... tttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|218483700|gb|FG965930.1|FG965930
EST:     AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAG                         ATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAGgtgaggttca ... tttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|27577977|gb|CB000672.1|CB000672
EST:     AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAG                         ATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAGgtgaggttca ... tttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|27576373|gb|CA999067.1|CA999067
EST:     AGCTACAGGAGCGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTAAAG                         ATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAGgtgaggttca ... tttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|58692466|gb|CK081153.1|CK081153
EST:     AGCTACAGGAGCGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTAAAG                         ATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAGgtgaggttca ... tttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|27546502|gb|CA764746.2|CA764746
EST:     AGCTACAGGAGCGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTAAAG                         ATTGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAGgtgaggttca ... tttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|86859495|gb|CI278890.1|CI278890
EST:     AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAG                         ATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAGgtgaggttca ... tttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|55411724|gb|CV724100.1|CV724100
EST:     AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAG                         ATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAGgtgaggttca ... tttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|58678370|gb|CK067057.1|CK067057
EST:     AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAG                         ATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAGgtgaggttca ... tttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|25803762|gb|CA759723.1|CA759723
EST:     AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAG                         ATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAGgtgaggttca ... tttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|58666161|gb|CK054847.1|CK054847
EST:     AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAG                         ATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAGgtgaggttca ... tttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|33796275|gb|CF324004.1|CF324004
EST:     CTACAGGAGCGGTTGGCAAAGCTCTNNCGGAGGTGTTTGCTGTTCTAAAG                         ATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: CTACAGGAGCGGTTGGCAAAGCTCTC-CGGAGGTGTT-GCTGTTCTAAAGgtgaggttca ... tttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA

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), 71 (downstream exon)
Score: 37

ATTAGATCTGCAATTGAGCTAAGCACTTCTGATTATGACAAGGAAAAGCTACAGGAGCGGTTGGCAAAGCTCTCCGGAGGTGTTGCTGTTCTAAAGgtgaggttca ... tttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCATTGAATGCCACTAAAGCTGCTGTGGAAGAGGGTATTGTACCAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtggtgccctgaagttatattttgacctgtatatgcatcatgacctttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCATTGAATGCCACTAAAGCTGCTGTGGAAGAGGGTATTGTACCAG
                   ttttgac  putative branch site (score: 37)
                                           cctttcctac  putative PPT
         tgaagttatatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acacacaatgatgttgagaatggaagttgaattgcactgctaggagtggtgccctgaagttatattttgacctgtatatgcatcatgacctttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCATTGAATGCCACTAAAGCTGCTGTGGAAGAGGGTATTGTACCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
acacaca
- - - - - atgttga
- - - - - - - - - - - - - - -aattgca
- - - - - - - - - - - - - - - - - - ctgctag
- - - - - - - - - - - - - - - - - - - - - - - tggtgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgacctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgacc