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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caaatccatgttacattgcaatgcagattttgtgattgaaacaacactgtctgtattggtcctgcttatttttgacaagagtgtgtttgggtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG

Basic information

species Zea mays
transcript GRMZM2G091383_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G091383_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g13530.1 (Oryza sativa), 3'ss of exon 2
caaatccatgttacattgcaatgcagattttgtgat--tgaaacaacactgtctgtattggtcctgcttatttttgacaagagtgtgtttgggtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG
    |||||| | |||  ||||  |  |  ||  |   |   | | | |    | |||   |  ||  | || |         | || |    |  || ||||| || || || |||||||| |||||||| ||||||||||||||||||||||||||||| || ||||||||||| ||||||||||||
-ttttccatgatgcatatcaatttaactcgtgaaacactatgaaagcccatgttttatgtattttgtct-ttctcattttctttttgctgccatacctacagAATGGCCTCGCCACCAAGGTTGAGAAGTCTCGCAAGCAGATGAAGGAGAGGAAGAACAGAGCAAAGAAGATCCGTGGTGTGAAGAAG

upper sequence: GRMZM2G091383_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os06g36160.1 (Oryza sativa), 3'ss of exon 2
--caaatccatgttacattgcaatgcagattttgtgattgaaacaacactgtctgtattggtcctgcttatttttgacaagagtgtgtt-tgggtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG
    | |   || | ||| |  |   ||    ||    || | | |   | | || | |  |    | | |||    ||  | ||| || |   | ||  ||||| |||||||| || ||||| |||||||| || ||||||||||||||  |||||||||| || ||||||||||| ||||||||||||
tattattgattgattcat-gtgaaataggaactgcacatgcaccgatg-tatgtggagtcattg-acatgtttgaatcactaatgttttgttattctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGGAAGAACAGAGCAAAGAAGATCCGTGGTGTGAAGAAG

upper sequence: GRMZM2G091383_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT5G28060.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------------------------------caaatccatgttacattgcaatgcagattttgtgattgaaacaacactgtct---------gtattggtcctgcttatttttgacaagagtg--tgtttgggtttctg-cagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG
                                            || |  ||  | |  |    |   || ||| ||  |    |||||  |           | ||||  |||  || |   ||   | ||  ||||   ||   || ||||| || ||||  |||||| | ||||| ||  | || ||||| |||||||||||||||||||||||||||||||| ||||| ||||||
gtaatttctctttacttgtttgatagttaagtaaaacttttggttctagtttttagtctagcttactcttggtgctttgattttcactgctttgcgatgaaacaatggtgttgca-atctcatactgaaatgattgttgatgtgattgacagAATGGACTTGACACCAAGATTGAGAAATCAAGGAAACAGATCAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGTGGTGTTAAGAAG

upper sequence: GRMZM2G091383_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT3G04920.1 (Arabidopsis thaliana), 3'ss of exon 3
------------------------------------------------------------------------------------------------caaatccatgttacattgcaa--tgcagattttgtgattgaaacaacactgtctgtattggtcctgcttatttttgacaagagtgtgtttgggtttctg-cagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG
                                                                                                 || |  | | ||  |   ||  | | || ||| |   |   |   ||||   |||  |   | |  ||||  || |  |   | ||| |  ||   || ||||| || ||||  || ||| | ||||||||  | || || || ||||| |||||||||||||||||||| ||||| ||||| ||||||
gtaaatgctttttccactcttgtttccattgttatatattgctactcacattgacccgtcttaaatcattactcttgctcattactgtttgtctgaaaattataagctatgtgataagtttcggactttata--tcgtattgcacttggtgttctctgcatctttatacttaaacatgctttgtctatgtggttggcagAATGGACTTGACACTAAGATTGAGAAGTCAAGGAAACAAATTAAGGAAAGGAAGAACAGGGCGAAGAAAATCCGTGGTGTTAAGAAG

upper sequence: GRMZM2G091383_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv14s0030g01620.t01 (Vitis vinifera), 3'ss of exon 3
--caaatccatgttacattgcaatgcagattttgtgattgaaacaacactgtctgtattggtcctgcttatttttgacaagagtgtgtttgggtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG
     |   |  | || |     |      ||||   || ||    |    ||| |  |   ||   || || |||    || | || | |  |    |||||| ||  | | ||||||||| ||||||||  | ||||| ||||||||||||||||| ||| | |||||| |||| ||||| ||||||
tttttaaaaaaatcacgtcttccttttttctttgaactttaattgccctcctctct-ctaccccattttcttcttgcattgaatttgct-gtttggtggcagAATGGATTGGATACCAAGGTCGAGAAGTCTAGGAAGCAAATGAAGGAGAGGAAGAATAGGTCCAAGAAGGTCCGAGGTGTAAAGAAG

upper sequence: GRMZM2G091383_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv07s0151g00900.t01 (Vitis vinifera), 3'ss of exon 3
caaatccatgt-tacattgcaatgcag--attttgtgat-tgaaacaacactgtctgtattggtcctgcttatttttgacaagagtgtgtttgggtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG
 | | | ||||  || | |  |   ||  || || |  |     |     || |  | |     | |   | | | |||| | ||    ||   || |  |||||| ||  | | |||||||||||| |||||  | ||||| |||||||| |||||||||||||| |||||| |||| || |||||||||
-acaacaatgtacacttagtgaacaaggaatcttatcttgctttattttgctattcgaaacatgcttctctttctctgaccatagcaactt---gtctgcgcagAATGGATTGGATACCAAGGTGGAAAAGTCAAGGAAGCAAATGAAGGAAAGGAAGAACAGGGCCAAGAAGGTCCGAGGAGTGAAGAAG

upper sequence: GRMZM2G091383_T01 (Zea mays), 3'ss of exon 2
lower sequence: EDP07861 (Chlamydomonas reinhardtii), 3'ss of exon 4
----caaatccatgttacattgcaatgcagattttgtgattgaaacaacactgtctgtattggtcctgcttatttttgacaagagtgtgtttgggtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG-------------
    |  ||||   |  ||  ||  |  || |||  |||| |   | |  ||||  |   ||   |||||||| ||   |    |  ||  | |    |  |||||||| || |  |  ||||||||||||||||||||||||||||||||| |   |||  | || |||||| ||||||| |  ||||||             
cggtcgcatccggttggcagcgcg-tttagctttcctgatgggctcga-gctgttggctctga--ctgcttatgttgtgcctttgcttgcgttgccgccaacagAACGGCCTGGAGAAGAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGCGCCGGAAGCGCGCCAAGAAGGTCCGCGGCGCCAAGAAGAACGCGGGCGCCG

upper sequence: GRMZM2G091383_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S13_236V6.1 (Physcomitrella patens), 3'ss of exon 3
-----------------------------------------------------caaatccatgttacattgcaatgcagattttgtgattgaaacaacactgtctgtattggtcctgcttatttttgacaagagtgtgtt--tgggtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG
                                                       ||  |||||||  ||    |  | ||  | || |           ||| |  ||| |||  | |  ||  |    ||  |   ||  ||| | | ||||||| ||||| ||||||||||| ||||||||| | |||||||| |||||| | |||||| |  ||||||||||| | ||||||||||||
gtgagattcatcgagacctgattggttcatccggctctgaggttcttgaaaggtcaaggcatgttatttttttgttgaaataatttgctgattggtttggtgtgttcatttgtcaagatctttagtattgaggatagtttaatggttatttgcagAATGGTCTGGCTACCAAGGTCGAGAAGTCGAGGAAGCAGATCAAGGAGCGCAAGAACCGTTCGAAGAAGATCAGGGGTGTGAAGAAG

upper sequence: GRMZM2G091383_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S450_9V6.1 (Physcomitrella patens), 3'ss of exon 3
---------------------------------------caaatccatgttacattg--caatgcagattttgtgattgaaacaacac-tgtctgtattggtcc--tgcttatttttgacaagagtgtgt-ttgggtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG
                                          |    ||  |  |||  |  |   |  |||    |||||     ||  |  |   |||   |  || | | | |||| ||   || || |||||  | ||||||| ||  | || |||||||| ||||||||| | |||||||| |||||| | |||||| |  ||||||||||| | ||||||||||||
gtgagttttctgtctccatcatgtggagtgcttatggtgtcgaggagtgaaaatttgagcggtctcggcttttctcttgaatggctacacgcttaggttgtctcagtgttaagtattga-aattttgggtgttggggatgtgcagAATGGATTGGCAACCAAGGTCGAGAAGTCGAGGAAGCAGATCAAGGAGCGCAAGAACCGATCGAAGAAGATCAGGGGTGTGAAGAAG

upper sequence: GRMZM2G091383_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S37_112V6.1 (Physcomitrella patens), 3'ss of exon 3
---------------------------------------------caaatccatg--ttacattgcaatgca-gattttgtgattgaaacaacactgtctgtattggtcctgct-tatttttgacaagagtgtgtttgggtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG
                                               |||| ||   |||   | |  | |   ||||  |  | | ||    |       |  ||   |  || || |||| | ||   |    |||||    || |||| ||  | ||||||||||||||||| || || |||||||| |||||| | |||||| |  | ||||||||| | || |||||||||
gtatgttctgtctcggcgcagggtgtcacgggatttctgcgagtgataatctatagcttatgctacctttctcaatttcattctggcaatcgaaaacctaattctgcatccactgtaattttaataactttcaaattgggaacatgtagAATGGATTGGCTACCAAGGTGGAGAAATCCCGGAAGCAGATTAAGGAGCGCAAGAACCGTTCCAAGAAGATCAGGGGCGTGAAGAAG

upper sequence: GRMZM2G091383_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ16004 (Selaginella moellendorffii), 3'ss of exon 3
caaatccatgttacattgcaatgcagattttgtgattgaaacaacactgtctgtattggtcctgcttatttttgacaagagtgtgtttgggtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG
                      |     || ||  ||   |   | | |    |       |  |  |||| | ||    || |  ||    |  | |||||||| ||||| ||||  | | | || ||| | |||||| | |||||| |||||||||| ||||||||||||||||| |||||||||
----------------------gtgagcttagttcttttgatt-ctcggcgccttcgcaaacaacagatttctcaccttggtttcgtttt-ctgttccagAACGGACTTGCCACCAGAGAGCAAAAATCGAGGAAGCAGCTCAAGGAGCGGAAGAACAGAGCGAAGAAGATCCGCGGAGTGAAGAAG

upper sequence: GRMZM2G091383_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ07954 (Selaginella moellendorffii), 3'ss of exon 3
caaatccatgttacattgcaatgcagattttgtgattgaaacaacactgtctgtattggtcctgcttatttttgacaagagtgt-gtttgggtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG
                      |     || ||  ||   |   | | |    |    |  |  |  |||| | ||    || | ||||    |||  |||||||| ||||| ||||  | | | || ||| | |||||| | |||||| |||||||||| ||||||||||||||||| |||||||||
----------------------gtgagcttagttcttttgatt-ctcggcgccttcgcgagcaacagatttctcaccttggtttcgttttccattc--cagAACGGACTTGCCACCAGAGAGCAAAAATCGAGGAAGCAGCTCAAGGAGCGGAAGAACAGAGCGAAGAAGATCCGCGGAGTGAAGAAG

upper sequence: GRMZM2G091383_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ29464 (Selaginella moellendorffii), 3'ss of exon 3
caaatccatgttacattgcaatgcagattttgtgat-tgaaacaacactgtctgtattggtcctgcttatttttgacaagagtgtgtttgggt-ttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG
                            |  ||||  |||    |   | |||  | | |  || || | | | ||      |    |||  | || |||||||||| ||||| |||| || | |||||||| | |||||| | |||||||||||||||||||| |||||||||||||| |||||||||
---------------------------gtgagtgaagtgagctcatggtttctcgacttgcgct-ctaactctggaagcttttccccttgcatcttttgcagAACGGACTTGCAACCAGGGAGCAGAAGTCGAGGAAGCAGCTCAAGGAGAGGAAGAACAGGGCCAAGAAGATCCGCGGAGTGAAGAAG

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|211244227|gb|FL117664.1|FL117664
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|37399539|gb|CF637099.1|CF637099
EST:     ACAACGTCGACTCTGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|60347596|gb|DN214569.1|DN214569
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|211316841|gb|FL135401.1|FL135401
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGA
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGA
EST: gi|211316839|gb|FL135399.1|FL135399
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|60353470|gb|DN220443.1|DN220443
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|211316838|gb|FL135398.1|FL135398
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|149102995|gb|EE288355.2|EE288355
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|8516244|gb|BE122972.1|BE122972
EST:     GCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: GCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|113703592|gb|EE681096.1|EE681096
EST:     ACAACGTCGACTCTGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|60396565|gb|DN229434.1|DN229434
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|211318855|gb|FL135405.1|FL135405
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|29543354|gb|CB603750.1|CB603750
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|211244232|gb|FL117669.1|FL117669
EST:     ACAACGTCGACTCARCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|12970877|gb|BG267203.1|BG267203
EST:     ACAACGTCGACTCTGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|211316842|gb|FL135402.1|FL135402
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGA
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGA
EST: gi|29945877|gb|CB815865.1|CB815865
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|29543674|gb|CB604054.1|CB604054
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|32913480|gb|CF018292.1|CF018292
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|71426587|gb|DR807637.1|DR807637
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|29946931|gb|CB816396.1|CB816396
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|211318854|gb|FL135404.1|FL135404
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|8516654|gb|BE123379.1|BE123379
EST:     GCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: GCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|211244221|gb|FL117658.1|FL117658
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|60357475|gb|DN224448.1|DN224448
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|161579748|gb|EY950695.1|EY950695
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCG
EST: gi|211316843|gb|FL135403.1|FL135403
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|109179434|gb|EC379989.1|EC379989
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG
EST: gi|6827189|gb|AW330832.1|AW330832
EST:     ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGG                         AACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCATGCAGATGAAGGAGAGG
genomic: ACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGG

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: 48 (upstream exon), 49 (downstream exon)
Score: 161

CCGCACCCACTTCGGAGGCGGCAAGTCTACCGGATTCGGTCTCATCTACGACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 177

CCGCACCCACTTCGGAGGCGGCAAGTCTACCGGATTCGGTCTCATCTACGACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 146

CCGCACCCACTTCGGAGGCGGCAAGTCTACCGGATTCGGTCTCATCTACGACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 119

CCGCACCCACTTCGGAGGCGGCAAGTCTACCGGATTCGGTCTCATCTACGACAACGTCGACTCAGCCAAGAAGTTCGAGCCCAAGTACAGGCTTATCAGGgtatgcgtct ... gtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgtctgtattggtcctgcttatttttgacaagagtgtgtttgggtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG
                        ttttgac  putative branch site (score: 119)
                                              tttctgc  putative PPT
                    ttatttttga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caaatccatgttacattgcaatgcagattttgtgattgaaacaacactgtctgtattggtcctgcttatttttgacaagagtgtgtttgggtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- -atccatg
- - - - - - - - - caatgca
- - - - - - - - - - - - - - - tgtgatt
- - - - - - - - - - - - - - - - - - - -aacaaca
- - - - - - - - - - - - - - - - - - - - - - - - - -tgtattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgttt