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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgcatctgagcccaaaatcaatgtgtcccgtcggttcaattcgttggtgaatactggcgctgatgttgtggtgtttttttttttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG

Basic information

species Oryza sativa
transcript LOC_Os02g34460.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g34460.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G043737_T01 (Zea mays), 3'ss of exon 1
gtacgcatctgagcccaaaatcaatgtgtcccgtcggttcaattcgttggtgaatactggcgctgatgttgtggtgtttttttttttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
||| | || |  || | |        ||  ||     ||   |  ||       | |  | | | ||  |||        |||  | | |  |||||||||||||||||||||| |||||||||||||||||||||||| | |
gtaaggat-tacgctcgaggc-----tgctccacgattttcgtctgtccccttttgccagtgttaatactgta-------tttgctaccgc-agATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGG

upper sequence: LOC_Os02g34460.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G065237_T01 (Zea mays), 3'ss of exon 1
gtacgcatctgagcccaaaatcaatgtgtcccgtcggttcaattcgttggtgaatactggcgctgatgttgtggtgtttttttttttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
||| | || |  || | |        ||  ||     ||   |  |||      |   || | | ||  |||         |||  |     ||||||||| |||||||||| | |||||||||||||||||||||||| | |
gtaaggat-tacgctcgaggc-----tgctccacgattttcgtatgttcccttttgtcggtgttaatactgta--------tttgctaccacagATCATCCTCAAGAAGAACAGCAATGAGATCTGCAAGTACCTCTTCAAGG

upper sequence: LOC_Os02g34460.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G459828_T01 (Zea mays), 3'ss of exon 1
gtacgcatctgagcccaaaatcaatgtgtcccgtcggttcaattcgttggtgaatactggcgctgatgttgtggtgtttttttttttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
||| | || |  || | |        ||  ||     ||   |  |||      | | || | | ||  |||        |||  | | |  |||||||||||||||||||||| ||||||||||||||              
gtaaggat-tacgctcgaggc-----tgctccacgattttcgtatgttcccttttgccggtgttaatactgta-------tttgctaccgc-agATCATCCCCAAGAAGAACCGCAATGAGATCTGCAA--------------

upper sequence: LOC_Os02g34460.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G043737_T02 (Zea mays), 3'ss of exon 1
gtacgcatctgagcccaaaatcaatgtgtcccgtcggttcaattcgttggtgaatactggcgctgatgttgtggtgtttttttttttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG---------------------------------------------------
||| | || |  || | |        ||  ||     ||   |  ||       | |  | | | ||  |||        |||  | | |  |||||||||||||||||||||| |||||||||||||||||||||||| | |                                                   
gtaaggat-tacgctcgaggc-----tgctccacgattttcgtctgtccccttttgccagtgttaatactgta-------tttgctaccgc-agATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGGGTATGTGGTTCTTGGTCCACTAGACTCGCAGTAGGGTAACCTGGGCTGATT

upper sequence: LOC_Os02g34460.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G050925_T01 (Zea mays), 3'ss of exon 1
gtacgcatctgagcccaaaa-tcaatgtgtcccgtcggttcaa--ttcgttggtg--aatactggcgctgatgttgtggtgtttttttttttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
||| ||   |  || | |   |||||  |   |  |   ||    ||||   ||     | | || | | || | |      ||||| ||       |||||||||||||||||||||| |||||||||||||||||||||||| | |
gtaagcgagtacgcgcgaggctcaatacgctgctgctcctcggctttcgcctgttctgctgccggtgttaatatcgcacctgtttttcttcaaccgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGG

upper sequence: LOC_Os02g34460.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA08G02070.1 (Glycine max), 3'ss of exon 1
------------------gtacgcatctgagcccaaaatcaatg----tgtcccgt-cggttcaattcgttggtgaatactggcgctgatgttgtggtgtttttttttttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
                     ||  |   |    ||  || ||     ||   ||| |||| |||||  ||  |  |  |||  ||  |  |    |||  | |||  || | | ||||||| ||  |||||||||| || ||||||||||| |||||||||||||
gtacgtcgtcaatttcttactcgttttgaaatttaatctcgattctcttgcatcgttcggtacaatttttt--ttcactctgatgcaaaaatctgcgtgcgtgtttacttgt-tcagATCATTCCTGAGAAGAACCGCAAGGAGATCTGCAAATACCTCTTCCAAG

upper sequence: LOC_Os02g34460.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA05G37470.1 (Glycine max), 3'ss of exon 1
-----------------------gtacgcatctgagcccaaaatcaatgtgtcccgtcggttcaattcgttggtgaatactggcgctgatgttgtggtgtttttttttttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
                        |  | || | | | | |   |  ||  ||   ||| |    ||  ||  |  |  |||  ||  |  ||   |||  | ||| ||| | | ||||||||||  |||||||||| || ||||||||||| |||||||||||||
gtacgtcgtcaatttcttactcgtttggaatttaatctcgattcctttgcatcgtttcgttcattttttttttttcactctgatgcaaacatttgcgtgcgtgtttatttgt-tcagATCATCCCGGAGAAGAACCGCAAGGAGATCTGCAAATACCTCTTCCAAG

upper sequence: LOC_Os02g34460.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA11G02410.3 (Glycine max), 3'ss of exon 1
gtacgcatctgagcccaaaatcaatgtgtcccgtcggttca--attcgt--tggtgaatactggcgctg-atgttgtggtgtttttttttttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
    | ||| || |   || |   |       |  | ||||    |  |  ||||| |  | |    || |  |  |  | |  ||| |||| ||  ||||||| ||| |||||||||| || ||||||||||| |||||||||||||
----gtatccgaac--gaacttggtcctcttagctgtttcataggtaataatggtggaatcagcttatgcaaatcctaatttgatttgttttgtgc-agATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAG

upper sequence: LOC_Os02g34460.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA01G43110.1 (Glycine max), 3'ss of exon 1
gtacgcatctgagcccaaaatcaatgtgtcccgtcggttcaattcgttggtgaatactggcgctgatgttgtggtgtttttttttttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
          |   || || |   |   ||    |  ||  || || |||      ||   ||  ||  |    || ||| |||| |     ||||||| ||| |||||||||| || ||||||||||| |||||||||||||
----------gtaaccgaacttggt-cctcttagctctttcatacggtggaatcagcttatgcaaatcctaatttgatttgttttgtgc---agATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAG

upper sequence: LOC_Os02g34460.1 (Oryza sativa), 3'ss of exon 1
lower sequence: Vv16s0050g01160.t01 (Vitis vinifera), 3'ss of exon 1
gtacgcatctgagcccaaaatcaatgtgtcccgtcggttcaattcgttggtgaatactggcgctgatgttgtggtgtttttttttttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
   ||  |||    |   | |       |    ||  | ||| ||     ||  |    | |  |    |||  ||||  ||   || ||  |||| |||||| ||||||| ||||  ||||||| |||||||||||||||||
--gcgagtcttcctcagcatttcgcactttttctctttgcaaatc-----tgtgtttctgtgaagtaactgttttgttaattccattgtgc-agATTATCCCCGAGAAGAATCGGAGAGAGATCTCCAAGTACCTCTTCCAAG

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|88422621|gb|CI571603.1|CI571603
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|88725311|gb|CI748570.1|CI748570
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGGCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|58586656|gb|CF984964.1|CF984964
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|88722105|gb|CI745432.1|CI745432
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGAAGGTTGTCGCCATG                         ATCATCCCCAAGAAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAA
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAA-GAACCGGAATGAGATCTGCAAGTACCTCTTCCAA
EST: gi|88398335|gb|CI588223.1|CI588223
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCAATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|88363743|gb|CI609100.1|CI609100
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|25800452|gb|CA756413.1|CA756413
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|88444819|gb|CI696249.1|CI696249
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|88314115|gb|CI602447.1|CI602447
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|163929239|gb|EG712692.1|EG712692
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|88387154|gb|CI577940.1|CI577940
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|88329122|gb|CI658784.1|CI658784
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|11863303|gb|AU065659.2|AU065659
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|88580666|gb|CI697610.1|CI697610
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|86899170|gb|CI298075.1|CI298075
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|117232299|gb|CT860043.1|CT860043
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|88414633|gb|CI698742.1|CI698742
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|4879414|gb|AU063713.1|AU063713
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGT-GCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|163926015|gb|EG712319.1|EG712319
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|88732344|gb|CI755521.1|CI755521
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGNAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|55413805|gb|CV726181.1|CV726181
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|58690564|gb|CK079251.1|CK079251
EST:     -CGTCGTCCCGCGCGCTTGGAGGTCGG-CTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|88343960|gb|CI638695.1|CI638695
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|58665575|gb|CK054261.1|CK054261
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|3090519|gb|C93506.1|C93506
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGNCCTGCTCGACGGTTGTNGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|88426462|gb|CI576704.1|CI576704
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|88588548|gb|CI706370.1|CI706370
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|88426391|gb|CI576633.1|CI576633
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|88356652|gb|CI617735.1|CI617735
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
EST: gi|88330762|gb|CI636770.1|CI636770
EST:     CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATG                         ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
genomic: CCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG

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), 49 (downstream exon)
Score: 19

GCGAACTGCCGGGCGCTAGGGTTTCGGGTTCCTCGACCTCTCGCCGCCGTCGTCCCGCGCGCTTGGAGGTCGGCCTGCTCGACGGTTGTCGCCATGgtacgcatct ... tttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caattcgttggtgaatactggcgctgatgttgtggtgtttttttttttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG
                     cgctgat  putative branch site (score: 19)
                                   tgtttttttttttctg  putative PPT
                                     tttttttttttctgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgcatctgagcccaaaatcaatgtgtcccgtcggttcaattcgttggtgaatactggcgctgatgttgtggtgtttttttttttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC