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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtctgttgttataactgctttgagatagaaatagattaatgtttgcttcttaaggaagaaaaattaaggtagtttgttgctcactgagttgatatcaacgttcttctggctttggatctttaaaccgcttcctctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGACTGGCAGCTAGAGTTGACGCCATCAAGGACAACCTGGAGAATGATGAGC

Basic information

species Oryza sativa
transcript LOC_Os06g02380.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g02380.1 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G095252_T02 (Zea mays), 3'ss of exon 4
gttagtctgttgttataactg-ctttgagatagaaatagattaatgtttgcttcttaaggaagaaaaattaaggtagtttgttgctcactgagttgatatcaacgttcttctggctttggatctttaaaccgcttcctctttgtc---agGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGACTGGCAGCTAGAGTTGACGCCATCAAGGACAACCTGGAGAATGATGAGC
|| ||| ||| |   ||| |  |  |    |      ||||| || |||||||| | ||||| |     |  | |       |      |   |  |  ||||| || || ||| | |  |||  ||||     |||| ||| |    ||||||||||||||||||||||||||||||||||||| ||||| ||| || | || ||||||| ||| || ||||||||||| |  |||||||| |||||||
gtaagt-tgtcggagtaattaaccattttgtgctgccagatttatatttgcttcatgaggaatacttcctttgatcagaacatataggtttgttctagttcaactttattttggttatatatcgctaaaattgctcctttttctttatagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGATGCACCCTTTTGCGGCTTGCAGCTAAAGTCGATGCCATCAAGGATACACTGGAGAACGATGAGC

upper sequence: LOC_Os06g02380.1 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G083716_T04 (Zea mays), 3'ss of exon 9
gttagtctgttgttataactgctttgagatagaaatagattaatgtttgcttcttaaggaagaaaaattaaggtagtttgttgctcactgagttgatatcaacgttcttctggctttggatctttaaaccgcttcctctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGACTGGCAGCTAGAGTTGACGCCATCAAGGACAACCTGGAGAATGATGAGC
                                      || | |   | || |||        |||  |   ||| |||  |||| | |    |  |    || |   | |  ||   | | |||      ||| |||||   |||||||| ||||||||||||||||||||||||||||||||||||||| || | || ||||||| ||| |||||||||||||| |  |||||||| || ||||
--------------------------------------atcactccatactccttgcttcttgaaacattctgta-ttttctgctgaattctcttctggttacatatgtatcactaaagttgttt------ctttctcttca-cagGCTGCCGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTTTGCGGCTTGCAGCTAAAGTCGACGCCATCAAGGATACACTGGAGAACGACGAGC

upper sequence: LOC_Os06g02380.1 (Oryza sativa), 3'ss of exon 10
lower sequence: GLYMA08G18760.1 (Glycine max), 3'ss of exon 9
gttagtctgttgttataactgctttgagatagaaatagattaatgtttgcttcttaaggaagaaaaattaaggtagtttgttgctcactgagttgatatcaacgttcttctggctttggatctttaaaccgcttcctctttg----tcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGACTGGCAGCTAGAGTTGACGCCATCAAGGACAACCTGGAGAATGATGAGC
                                                                        ||    | ||  |  |  |   | | | |  | | || |||  ||   ||| ||| |   |   |  |||    |||||| ||||| ||||||||||||||||||||||| || ||||||||||||||||| ||| | |  || || || |||||||| | ||| || ||||||||  
------------------------------------------------------------------------gtgtccttttctttcccaaa--gttttta--gattttttgggattctgtctgtaagctaatagtttgttgactttcagGCAGCTGTAGAGGAAGGTATTGTTGTTGGTGGTGGTTGCACTCTTCTGAGACTTGCATCAAAGGTGGATGCAATCAAGGATAGCCTTGATAATGATGAAG

upper sequence: LOC_Os06g02380.1 (Oryza sativa), 3'ss of exon 10
lower sequence: GLYMA15G40110.1 (Glycine max), 3'ss of exon 9
gttagtctgttgttataactgctttgagatagaaatagattaatgtttgcttcttaaggaagaaaaattaaggtagtttgttgctcactgagttgatatcaacgttcttctggctt-tggatctttaaaccgcttcctctttg----tcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGACTGGCAGCTAGAGTTGACGCCATCAAGGACAACCTGGAGAATGATGAGC
                                                                        |||   | ||  |  |  |   | | | |   ||||| ||  || ||  ||| ||| |   |   |  |||    |||||| ||||| ||||| |||||||| |||||||| || ||||||||||||||||| ||| | |  || ||| | |||||||| | ||| || ||||||||  
------------------------------------------------------------------------gtatccttttctttcccaaa--gtttttagatttcttttgaattctgtttctgtaagctaatagtttgttgactttcagGCAGCTGTAGAGGAGGGTATTGTAGTTGGTGGTGGTTGCACTCTTCTGAGACTTGCATCAAAGGTGGACACAATCAAGGATAGCCTTGATAATGATGAAG

upper sequence: LOC_Os06g02380.1 (Oryza sativa), 3'ss of exon 10
lower sequence: AT3G13470.1 (Arabidopsis thaliana), 3'ss of exon 10
gttagtctgttgttataactgctttgagatagaaatagattaatgtttgcttcttaaggaagaaaaattaaggtagtttgtt--gctcactgagttgatatcaacgttcttctggctttggatctttaaaccgcttcctctttg----tcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGACTGGCAGCTAGAGTTGACGCCATCAAGGACAACCTGGAGAATGATGAGC
                                                                    | |  |  ||| |   ||| |  | |||      | ||| || ||   | |  ||||| |        |||| |||    ||||||||||||||||||||||||||| |||||||| || |||||||| ||  | || ||| | |  || || ||||||||||| | ||| || ||||||||  
-------------------------------------------------------------------gtgattttctttatccagctgatggggttataggtatcgtgctactca-tgtatatcttaattatatgacctcattgagtttcagGCTGCTGTTGAGGAAGGTATTGTCGTTGGTGGTGGTTGCACTCTGCTCCGGCTTGCATCAAAGGTCGATGCCATCAAGGATACCCTTGAAAATGATGAAG

upper sequence: LOC_Os06g02380.1 (Oryza sativa), 3'ss of exon 10
lower sequence: AT1G55490.1 (Arabidopsis thaliana), 3'ss of exon 10
gttagtctgttgttataactgctttgagatagaaatagattaatgtttgcttcttaaggaagaaaaattaaggtagtttgttgctcactgagt-tgatatcaacgttcttctggctttggatctttaaaccgcttcctctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGACTGGCAGCTAGAGTTGACGCCATCAAGGACAACCTGGAGAATGATGAGC
                                                                  |||  |    | ||  |||     ||  || |||   | | ||  ||   |   |    | |   | ||    ||  |||||| ||||| ||||||||||||||||||||||| || |||||||| ||  | || ||  | |  ||||| ||||| || | ||  || || ||||||||  
---------------------------------------------------------------gtgattttgtatttctgaggcttgagaagcgtgttatttgcatactcgtgaactataactaatcag--gattttaattcttcagGCCGCTGTCGAGGAAGGTATTGTTGTTGGTGGTGGTTGCACTCTGCTTCGTCTTGCTTCCAAGGTTGATGCCATTAAAGCCACGCTTGATAATGATGAAG

upper sequence: LOC_Os06g02380.1 (Oryza sativa), 3'ss of exon 10
lower sequence: AT5G56500.2 (Arabidopsis thaliana), 3'ss of exon 10
gttagtctgttgttataactgctttgagatagaaatagattaatgtttgcttcttaaggaagaaaaattaaggtagtttgttgctcactgagttgatatcaacgttcttctggctttggatctttaaaccgcttcctctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGACTGGCAGCTAGAGTTGACGCCATCAAGGACAACCTGGAGAATGATGAGC
                                        |||  |    |   |||| ||  |   || |  |  ||       ||    || || |  ||         |   ||||| |||| ||              | |||||||||| || ||||||||||||||||| ||||| || ||||| || ||||| ||| | | ||| ||||| || || || |  || |  || |||||  
---------------------------------------gtaacatc--atctctaagcaaagagccttgaaatgttt--ccatccatatggtagagactaa---------gttgttggaccttttaa--------------ttagGCTGCTGTGGAAGAAGGTATTGTTGTTGGCGGAGGATGTACTCTGCTAAGACTTGCATCGAAAGTGGACGCTATTAAAGAGACTCTAGCAAACGATGAAG

upper sequence: LOC_Os06g02380.1 (Oryza sativa), 3'ss of exon 10
lower sequence: Vv09s0002g03930.t01 (Vitis vinifera), 3'ss of exon 9
gttagtctgttgttataactgctttgagatagaaatagattaatgtt-tgcttcttaaggaagaaaaattaaggtagtttgttgctcactgagttgatatcaacgttcttctggctttggatctttaaaccgcttcctctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGACTGGCAGCTAGAGTTGACGCCATCAAGGACAACCTGGAGAATGATGAGC
       |  |||| ||| |          |  |||  |  |||  | |||||  |      |     | |     |    ||||||  ||  || |  | || ||    |||| |    || || ||            |||| |||| || ||||||||||||||||| |||||||| ||||||||  |  || | || ||||| | |||||| || ||||| ||||  || || | ||||||||
------gtactgtt-taattaaacatgaccatcaatttagaaatactctgctttctccatttgttgcctca---ctgccctttgctc-ttgcatttaagttaaggtgtaactggttcaaaattttcaa----------tattgttagGCAGCCGTTGAGGAAGGTATTGTGGTTGGTGGCGGGTGCACATTGTTGCGTCTAGCAGCAAAAGTTGATGCTATCAAAGACACTCTTGATAGTGATGAGC

upper sequence: LOC_Os06g02380.1 (Oryza sativa), 3'ss of exon 10
lower sequence: Vv06s0004g00240.t01 (Vitis vinifera), 3'ss of exon 10
gttagtctgttgttataactgctttgagatagaaatagattaatgtttgcttcttaaggaagaaaaattaaggtagtttgttgctca----ctgagttgatatcaacgttcttctggctttggatctttaaaccgcttcc-tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGACTGGCAGCTAGAGTTGACGCCATCAAGGACAACCTGGAGAATGATGAGC
                                             |||  ||| | |         | | |  | | | |||||| |    |     ||||  ||  |        |  ||   |  |    |   |||  |  || |||||| |||||||||||||| |||||||| ||||| ||||||||||| |||||||| ||  | |  || || |||||||||||||  || || ||||||||| 
-----------------------------------------gtaatttctttcatgaaattatggcactgaatt-gctagttgctaatattcaagagtgatggcacagccagaacagtattaagtagtatggcattttcaatgattttcagGCAGCTGTTGAGGAAGGGATTGTTGTAGGTGGTGGGTGCACTCTCCTGAGACTTGCCTCAAAGGTGGATGCCATCAAGGACACGCTTGATAATGATGAGG

upper sequence: LOC_Os06g02380.1 (Oryza sativa), 3'ss of exon 10
lower sequence: EFJ32217 (Selaginella moellendorffii), 3'ss of exon 9
gttagtctgttgttataactgctttgagatagaaatagattaatgtttgcttcttaaggaagaaaaattaaggtagtttgttgctcactgagttgatatcaacgttcttctggctttggatctttaaaccgcttcctctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGACTGGCAGCTAGAGTTGACGCCATCAAGGACAACCTGGAGAATGATGAGC
                                                                                             | |||| | || |||| |  |      | | |  |   | ||   |||  |||||||||||||||||||| || ||||||||||||||     ||||| |||| ||| |    | ||| || ||||||||||| |  || || ||  | ||||
--------------------------------------------------------------------------------------------gtaatat-accggtcttgtcacccgttttttctgcaattcctcgcttttcgcagGCTGCTGTTGAGGAAGGCATCGTTGTTGGTGGAGGCACAGCTCTTTTGAGGCTGTCGAAGAAAGTGGATGCCATCAAGGAAACGCTTGAAAACCAGGAGC

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|29627635|gb|CB632646.1|CB632646
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29625231|gb|CB630242.1|CB630242
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29622749|gb|CB627760.1|CB627760
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|7212768|gb|D46006.2|D46006
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCAC
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCAC
EST: gi|58670426|gb|CK059112.1|CK059112
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29673297|gb|CB669572.1|CB669572
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29661803|gb|CB658078.1|CB658078
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29618035|gb|CB623047.1|CB623047
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29657689|gb|CB653964.1|CB653964
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTTTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29615270|gb|CB620282.1|CB620282
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29625766|gb|CB630777.1|CB630777
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29683173|gb|CB679448.1|CB679448
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29624254|gb|CB629265.1|CB629265
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|3761784|gb|C99032.1|C99032
EST:     GAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: GAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|2801013|gb|AA754307.1|AA754307
EST:     AGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29680784|gb|CB677059.1|CB677059
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTTTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29627873|gb|CB632884.1|CB632884
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29616041|gb|CB621053.1|CB621053
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|86495883|gb|CI138516.1|CI138516
EST:     TGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: TGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|702958|gb|D49249.1|D49249
EST:     AGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29628205|gb|CB633216.1|CB633216
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|6934805|gb|AU082342.1|AU082342
EST:     AGAGTTGAGGATGCCCCTAAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AGAGTTGAGGATG-CCCT-AAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29689313|gb|CB685588.1|CB685588
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTTTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|218493375|gb|FG949729.1|FG949729
EST:     AACTANAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29614381|gb|CB619394.1|CB619394
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|701315|gb|D47606.1|D47606
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|58689772|gb|CK078459.1|CK078459
EST:     GAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: GAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|2801009|gb|AA754303.1|AA754303
EST:     AGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29658823|gb|CB655098.1|CB655098
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTTTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29657719|gb|CB653994.1|CB653994
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|218494239|gb|FG952759.1|FG952759
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29617291|gb|CB622303.1|CB622303
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|58602788|gb|CK013316.1|CK013316
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29616042|gb|CB621054.1|CB621054
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
EST: gi|29626463|gb|CB631474.1|CB631474
EST:     AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG                         GCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA
genomic: AACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGA

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), 75 (downstream exon)
Score: 235

GTGGGAGCACAAACAGAGACCGAACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAGgttagtctgt ... tctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGACTGGCAGCTAGAGTTGACGCCATCAAGGACAACCTGGAGAATGATGAGC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgatatcaacgttcttctggctttggatctttaaaccgcttcctctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGACTGGCAGCTAGAGTTGACGCCATCAAGGACAACCTGGAGAATGATGAGC
 agttgat  putative branch site (score: 235)
                                     ccgcttcctctttgtc  putative PPT
                            atctttaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtctgttgttataactgctttgagatagaaatagattaatgtttgcttcttaaggaagaaaaattaaggtagtttgttgctcactgagttgatatcaacgttcttctggctttggatctttaaaccgcttcctctttgtcagGCTGCTGTTGAGGAAGGTATTGTTGTTGGTGGAGGGTGCACTCTTCTGAGACTGGCAGCTAGAGTTGACGCCATCAAGGACAACCTGGAGAATGATGAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA