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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattgtggccacttggcgtcatattctctgcagattcctttttttcaggcagcttttataatttaattttcagtcgatgttcattattttccccccatctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG

Basic information

species Zea mays
transcript GRMZM2G082484_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G082484_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g36650.1 (Oryza sativa), 3'ss of exon 2
gtaatt----gtggccacttggcgtcatatt-ctctgcagattcctttttttcaggcagcttttat---aattta-attttcagtcgatgttcattattttccccccatctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG
|||||     |||   ||||||| ||  |||  |   || | |   |   |   || |  | || |   |||| | |   |||     | || | | |||||     || | | ||||||||| ||||||||||||||||||||||||||||||||||| ||||| ||||| ||||| || || || || || ||||||||||||||||| || ||||
gtaataaaaagtgatgacttggcatcgcattgttgaacaaaatttctacctgatggtaattattgttacaattgagaagctcatcaagtattaactgttttc-----atttttcatagGCTGGGTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCGAGTATTGTTGGCCGTCCGCGACATACAGGCGTTATGGTTGGGATGGGACAAAAAGATG

upper sequence: GRMZM2G082484_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA04G39380.2 (Glycine max), 3'ss of exon 2
gtaattgtggccacttggcgtcatattctctgcagattcctttttttcaggcagcttttataatttaattttcagtcgatgttcattattttccccccatctct-tatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG
      ||    |||| ||    | |||| |  |  |    ||   ||    ||  |      |||  || |||  |||  || |||  | |      |||| | || |||| || |||||||| |||||||||||  | ||||| || || ||||| ||||| || || || || |||||||| |||||||||||||| || |||||||
------gttagtactttgcagtttcttctgt-tatgtgtaattgcatctattagtctc---ggtttcgttatcaaacga--tttatt--tctataatgatctgtgtacagGCAGGATTTGCTGGTGATGATGCTCCTAGGGCTGTGTTTCCCAGTATTGTTGGCCGACCTCGTCATACTGGTGTTATGGTTGGGATGGGTCAAAAGGATG

upper sequence: GRMZM2G082484_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 2
gtaattgtggccacttggcgtcatattctctgcagattcctttttttcaggcagcttttataatttaattttcagtcgatgt-tcattattttccccccatctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG
                   || |  | ||  |  ||||  | ||||   |      |  |||    | | || |||  ||   | | || |||      || |   | |||| || |||||||| || ||||||||  | ||||| || || ||||| ||||| || || || || |||||||| |||||||||||||| || |||||||
-------------------gtta-gtacttcgtggatttttgttttgttg--catgtgcatatgcaagtcttgagttcataagtgaataatttattttaatatggaacagGCAGGATTTGCTGGTGACGATGCTCCTAGGGCTGTCTTTCCCAGTATTGTTGGCCGACCTCGACATACTGGTGTTATGGTTGGGATGGGTCAAAAGGATG

upper sequence: GRMZM2G082484_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA06G15520.2 (Glycine max), 3'ss of exon 2
gtaattgtggccacttggcgtcatattctctgcagattcctttttttcaggcagcttttat--aatttaattttcagtcgatgttcattattttc---cccccatctct-tatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG-
                   || |  | || ||||| ||| | ||  |      || | |||  | | |   ||||| |   || ||| | | ||        ||||| | || |||| || |||||||  || ||||||||  | ||||| || || ||||| |||||||| || || || |||||||| |||||||||||||| || ||||||| 
-------------------gtta-gtactttgcagtttcttgttagtgtaattgcatctatttagtcttggtttca-ttattgctcaatttatttaaatgatcatctgtgtacagGCAGGATTTGCTGT-GACGATGCTCCTAGGGCTGTGTTTCCCAGTATTGTTGGTCGACCTCGTCATACTGGTGTTATGGTTGGGATGGGTCAAAAGGATGC

upper sequence: GRMZM2G082484_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G19420.1 (Glycine max), 3'ss of exon 2
--gtaattgtggccacttggcgtcatattctctgcagattcctttttttcaggcagctt-ttataatttaattttcagtcgatgttcat---tattttccccccatctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG
     |   ||     |     | ||     || |   | |  ||     || ||| |   | |    |   ||  |   ||| || ||   ||||||  | |||    ||  |||| || ||||| || ||||| |||||  | || || ||||| |||||  |||| || |||||||| || ||||| |||||||||||||| ||||||||||
gttagaacatgttttttccaattgatgagtgcttcttgtgctattgaagtagacagttcgctctgtgcttgcttaaatatgatattaatatatattttttctccaatgtttgcagGCGGGTTTTGCAGGTGATGACGCTCCTAGGGCCGTGTTCCCCAGTATTATTGGGCGACCACGCCATACCGGTGTAATGGTTGGGATGGGTCAGAAGGATG

upper sequence: GRMZM2G082484_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA15G05570.1 (Glycine max), 3'ss of exon 2
------gtaattgtggccacttggcg------tcatattct-ctgcagattcctttttttcaggcagct-tttataatttaattttcagt-cgatgttcat---tattttccccccatctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG
        |  | | |||| |||  |      || | | |   || |||   || ||      |    |  |||  ||| | | || | |  ||| || ||   ||| ||   | |     ||  ||||||| ||||| || |||||||||||  | || || ||||| || ||  ||||  | |||||||| |||||||| |||||||||||||| ||||||||||
gttagaagatgttttgccaattgatgagtgtttcttgtgccattgaagaagactgttcactctgtgcttgcttagtattcattgttaaatatgatattgatatatatatttttctcgatgtttgcagGCTGGTTTTGCAGGTGATGATGCTCCTAGGGCCGTGTTCCCCAGCATTATTGGGAGACCACGCCATACTGGTGTAATGGTTGGGATGGGTCAGAAGGATG

upper sequence: GRMZM2G082484_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA05G32220.1 (Glycine max), 3'ss of exon 1
gtaattgtggccacttggcgtcatattctctgcagattcctttttttcaggcagcttttataatttaattttcagtcgatgttcattattttccccccatctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG
      ||    |||| ||| | |  | | |     || | | |  |   ||| ||  ||   || | ||   |   ||  |   | |||||      || |   | ||||||| |||||||| |||||||||||| | ||||| || || ||||| ||||| || || || ||||||||||| |||||||||||||| || |||||||
------gttagtacttagcggctttgtttttt---gtttcatgtgcttgtgcatctgctagccttgagttcataactga-atctttgatttt-----aatatggaacagGCTGGATTTGCTGGTGATGATGCTCCCAGGGCTGTCTTTCCCAGTATTGTTGGCCGACCTCGACACACTGGTGTTATGGTTGGGATGGGTCAAAAGGATG

upper sequence: GRMZM2G082484_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT5G09810.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaattgtggccacttggcgtcatattctctgcagattccttttt-ttcaggcagcttttataatttaattttcagtcgatgttcattattttccccccatctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG
         |  | || |    |   | | |  |||| |  | |  |||   |    ||| |  |  |  | | || |  |  | || ||  |      || | | | ||||||| |||||||| |||||||| ||  | || || ||||||||||| |||||||||||  | |||||||||||||||||||| ||||| ||||| ||||
---------gtgagttag----actgtttatttagatactgtatggttctaaccttctttgttgtacatgtgtaagac--tactgatcatgatttttgtatat-taacagGCTGGTTTTGCTGGTGATGATGCCCCGAGAGCAGTGTTCCCAAGTATTGTTGGTCGTCCTAGGCACACTGGTGTCATGGTTGGTATGGGTCAGAAAGATG

upper sequence: GRMZM2G082484_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT1G49240.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaattgtggccacttggcgtcatattctctgcagattcctttttttcaggcagcttttataatttaattttcagtcgatgttcattattttccccccatctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG
                       || ||||| |   || |||  ||| |||    | |  ||||||       | | |||     ||  |||            |  ||||||| || |||||||||||||||||| | || |||||||| ||| | |||||||| ||  | ||   |||||||||||||||||||   ||||| ||||
---------------------gttagtctcttc---tttcttactttaagg--attctcttaattttggcaagatttgatacaagttcctttg-----------tgcagGCTGGATTCGCTGGAGATGATGCTCCCAGAGCGGTTTTCCCCAGTGTTGTTGGTCGACCTAGACATCATGGTGTCATGGTTGGGATGAATCAGAAAGATG

upper sequence: GRMZM2G082484_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv04s0044g00580.t01 (Vitis vinifera), 3'ss of exon 3
gtaattgtggccacttggcgtcatattctctgcagattccttttttt-caggcagcttttataat-ttaattttcagtcgatgttcattattttccccccatctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG
     ||| |   |||    |    |  | ||||||||  || | ||    || |||  |  |||  | | ||| | |     |||  | || | |     |    |  ||||||| ||||| || |||||||||||| | || || || || ||||| || ||||| ||| | |||||||||||||||||||||||||| || || ||||
--gtctgttgtttctt--tcttgcttgatatgcagatttgttgtgttgtttgctgctcctcaaatgctcaatttgaataagctttccatgttatgct----ttatatgcagGCTGGATTTGCGGGTGATGATGCTCCCAGGGCAGTGTTTCCTAGTATTGTGGGTCGGCCAAGGCACACTGGTGTCATGGTTGGGATGGGTCAAAAAGATG

upper sequence: GRMZM2G082484_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv12s0178g00200.t01 (Vitis vinifera), 3'ss of exon 1
gtaattgtggccacttggcgtcatatt-ctctgcagattcctttttttcaggcagcttttataatttaattttcagtcgatgttcattattttccccccatctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG
   |||      | |  |  |  | |  |   |   |||    ||        | ||||  || |||  ||||||         |||||      | | |     |  ||||||| |||||||| |||||||||||  | ||||| ||||| ||||| ||||| || || || ||||| |||||||||||||||||||| || |||||||
---attaaactgattctgtttgctgtggcgaggtgaatttgcattcagtgattatctttgttagttttgttttca-------cacattaacgctgctcaaaaatgtgcagGCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTTGGCCGACCTCGACACACAGGTGTCATGGTTGGGATGGGCCAAAAGGATG

upper sequence: GRMZM2G082484_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S381_21V6.1 (Physcomitrella patens), 3'ss of exon 2
--gtaattgtggccacttggcgtcatattctctgcagattcctttttttcaggcagcttttataatttaattttcagtcgatgttcattattttccccccatctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG
  | | |  | |     | |  |  ||  ||      | |||||    | ||||  |  || |  |  ||  || |  | |   |  |           ||| |  |  |||| || || || ||||| ||||||||||| ||||| || || || || || || || ||| | ||||||||||| ||||| || |||||||||||||| |
ctgcattcttagatttgtagtttgctac-cttaatgcagtccttcgcgttaggcgtcagttgttgtggaagattgatccaaaaatggtg----------catgtaatgcagGCCGGTTTCGCGGGAGACGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG

upper sequence: GRMZM2G082484_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 3'ss of exon 3
gtaattgtggccacttggcgtcatattctctgcagattcctttttttcaggcagct--tttataatttaattttcagtcgatgttcattattttccccccatctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG
          |   || || || |  | | |   |        ||    |    ||  ||||| ||  |||  ||     |   |  ||| |||      ||       ||||||| || |||||||| ||||||||||| ||||||||||| || || ||||| || ||  | |||||||| || ||||| || |||||||||||||| |
----------ctcttttgcatctttatttataatgggcagacattggatgtagactaatttatgatc-aatcctctcgaaactgtgtttaattttggtgaattgaacgcagGCTGGTTTCGCTGGAGACGATGCTCCCCGCGCTGTTTTCCCCAGCATTGTTGGGCGCCCCAGGCACACTGGAGTGATGGTCGGTATGGGACAGAAGGACG

upper sequence: GRMZM2G082484_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S337_26V6.1 (Physcomitrella patens), 3'ss of exon 2
gtaattgtggccacttggcgtcatattctc-tgcagattcctttttttcaggcagcttttataatttaattttcagtcgatgttcatt-attttccccccatctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG
           || ||   |  ||| |  | | ||   |  |  | |||| |   |||   |  |    |    |    |      || | ||       ||       ||||||| || |||||||| ||||||||||| ||||||||||| || || ||||| || ||  | |||||||| || ||||| || |||||||||||||| |
-----------caattcatgctataatggcgttcatgataatactattcaagtgacttcagttgtgctgtccagaacgaaaccgtgtttaattgtggtgaattgaacgcagGCTGGTTTCGCTGGAGACGATGCTCCCCGCGCTGTTTTCCCCAGCATTGTTGGGCGCCCCAGGCACACTGGAGTGATGGTCGGTATGGGACAGAAGGACG

upper sequence: GRMZM2G082484_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
gtaattgtggccacttggcgtcatattctctgcagattcctttttttcaggcagcttttataatttaattt---tcagtcgatgttcattatt--ttccccccatctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG
               | |  ||| ||   |   |   || | | | ||  |    | ||  |  |   |||    || || |  |  |  | |  |      ||| |  |  |||| || || || ||||||||||||||||| ||||| || || || || || || || ||| | ||||||||||| ||||| || |||||||||||||| |
--------------gtagtatcaaatctccacaaccgtcttctgtgtctaggtcatgttggacctgtgtttaggccaatcaacatgtaggagtaatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG

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|211245028|gb|FL158560.1|FL158560
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCAGTGCTGTTTTCCCAAGTATAGT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCC-GTGCTGTTTTCCCAAGTATAGT
EST: gi|211242796|gb|FL158552.1|FL158552
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|211245027|gb|FL158559.1|FL158559
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|211242792|gb|FL158548.1|FL158548
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|211242797|gb|FL158553.1|FL158553
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|31353490|gb|CD437847.1|CD437847
EST:     AGAGGACATTCAGCCCCTAGTCT-TCCACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: AGAGGACATTCAGCCCCTAGTCTGT-GACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|211242798|gb|FL158554.1|FL158554
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTAGTTTTCCCAAGTATAGT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCT-GTTTTCCCAAGTATAGT
EST: gi|211245029|gb|FL158561.1|FL158561
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|211240566|gb|FL158540.1|FL158540
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|211242789|gb|FL158545.1|FL158545
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|211242795|gb|FL158551.1|FL158551
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|211245025|gb|FL158557.1|FL158557
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTSCCNGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|211242785|gb|FL158541.1|FL158541
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|211245026|gb|FL158558.1|FL158558
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|32938011|gb|CF042830.1|CF042830
EST:     CAGAGGACATTCAGCCCCTGGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|31355598|gb|CD439955.1|CD439955
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|211242787|gb|FL158543.1|FL158543
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGMTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|211245024|gb|FL158556.1|FL158556
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|211245030|gb|FL158562.1|FL158562
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|211242791|gb|FL158547.1|FL158547
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|78083306|gb|DV511699.1|DV511699
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|211242788|gb|FL158544.1|FL158544
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
EST: gi|32809559|gb|CD961793.1|CD961793
EST:     CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAG                         GCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT
genomic: CAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTT

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), 47 (downstream exon)
Score: 29

ATTGCAGATCATTTAACATAAATGGCTGACTCAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 79

ATTGCAGATCATTTAACATAAATGGCTGACTCAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 85

ATTGCAGATCATTTAACATAAATGGCTGACTCAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG


Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 14

ATTGCAGATCATTTAACATAAATGGCTGACTCAGAGGACATTCAGCCCCTAGTCTGTGACAATGGAACTGGAATGGTCAAGgtaattgtgg ... tctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttataatttaattttcagtcgatgttcattattttccccccatctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG
        atttaat  putative branch site (score: 14)
                           ttcattattttccccc  putative PPT
     ataatttaattttcag  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaattgtggccacttggcgtcatattctctgcagattcctttttttcaggcagcttttataatttaattttcagtcgatgttcattattttccccccatctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG