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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATCTTGAAGATTCATTCAAGAAAAATGAACTTGATGCGTGGCATTGATCTGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatagttgacacttatgagccaattttctaaaatacttctcatttcaagctgatacaaatatcatgaactgaaacaaatccaggcccagttataa...

Basic information

species Oryza sativa
transcript LOC_Os06g39870.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g39870.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA07G00420.1 (Glycine max), 5'ss of exon 8
TATCTTGAAGATTCATTCAAGAAAAATGAACTTGATGCGTGGCATTGATCTGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatagttgacacttatgagccaattttctaaaatacttctcatttcaagctgatacaaatatcatgaactgaaacaaatccaggcccagttataa
||| ||||| || ||||| |||| |||||| || ||||||||||||||| |||| |||||||| |||||||||||||| |||||||| || || |||||||| |      ||  ||            ||||   |  || |    | ||  |     |    |    ||     |    |   |    | |  ||    
TATTTTGAAAATCCATTCTAGAAGAATGAATTTAATGCGTGGCATTGATTTGAAGAAGATTGCCGAGAAGATGAATGGAGCATCTGGTGCTGAACTTAAGgtatactctatttgcatcatatgtttggttttaacacctaatctaaaattgtattccttgttgaagcaatttgtggtggtattgctgaactcctttgctt

upper sequence: LOC_Os06g39870.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA08G24000.1 (Glycine max), 5'ss of exon 8
TATCTTGAAGATTCATTCAAGAAAAATGAACTTGATGCGTGGCATTGATCTGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatagttgacacttatgagccaattttctaaaa-tacttctcatttcaagctgatacaaatatcatgaactgaaacaaatccaggcccagttataa-
||| ||||| || |||||||||| |||||| || |||||||||||||||||||| |||||||| |||||||||||||| |||||||| || || |||||||| | | |  ||  ||   ||        |||  | |  |  ||   | ||  |    ||    | |  |||   ||| |     |    | |  ||     
TATTTTGAAAATCCATTCAAGAAGAATGAATTTAATGCGTGGCATTGATCTGAAGAAGATTGCCGAGAAGATGAATGGAGCATCTGGTGCTGAACTTAAGgtatatttcatttgcatccatatttttggttttaacacctgatttaaaattgtattccatgttgaaacaatgtggtgagattg--ctgaactcctttgcttt

upper sequence: LOC_Os06g39870.1 (Oryza sativa), 5'ss of exon 6
lower sequence: AT5G19990.1 (Arabidopsis thaliana), 5'ss of exon 8
TATCTTGAAGATTCATTCAAGAAAAATGAACTTGATGCGTGGCATTGATCTGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatagttgacacttatgagccaattttctaaaatacttctcatttcaagctgatacaaatatcatgaactgaaacaaatccaggcccagttataa
 |||||||||||||| || || |||||||| ||||||||||| || |||||||||||||||||||||||||||||||| || || || || ||||| |||||     |  ||   | || |   |    | |||      ||   |||||    ||    |  || |  |    | | ||     |||            
CATCTTGAAGATTCACTCGAGGAAAATGAATTTGATGCGTGGAATCGATCTGAAAAAGATTGCAGAGAAGATGAATGGCGCTTCAGGTGCTGAGCTGAAGgta-aagtgttttctatttctctactt-ctatcttgttctctctacattttgc-ctctctcttatgtttttggttaatacgg--tcag------------

upper sequence: LOC_Os06g39870.1 (Oryza sativa), 5'ss of exon 6
lower sequence: AT5G20000.1 (Arabidopsis thaliana), 5'ss of exon 8
TATCTTGAAGATTCATTCAAGAAAAATGAACTTGATGCGTGGCATTGATCTGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgt--gtgtatagttgacact--tatgagccaattttctaaaatacttctcatttcaagctgatacaaatatcatgaactgaaacaaatccaggcccagttataa
|||||||||||| || ||||| |||||||| ||||||||||| || |||||||||||||||||||||||||||||||| || || || || ||||| |||||  |||| |   || | ||  |     |   || |||  |||   |||| | || |     |     ||| | |  | |                        
TATCTTGAAGATACACTCAAGGAAAATGAATTTGATGCGTGGAATCGATCTGAAAAAGATTGCAGAGAAGATGAATGGTGCTTCAGGTGCTGAGCTGAAGgtaagtgtttctctgtccctgcttctgtcttgttctctccaatctgtctc-tctctaatgtttttggttattacggtcag------------------------

upper sequence: LOC_Os06g39870.1 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv09s0002g05800.t01 (Vitis vinifera), 5'ss of exon 8
TATCTTGAAGATTCATTCAAGAAAAATGAACTTGATGCGTGGCATTGATCTGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatagttgacacttatgagccaatt----ttctaaaatacttctcatttcaagctgatacaaatatcatgaactgaaacaaatccaggcccagttataa
||| || || || || || || |||||||| ||||||||||| || |||||||| ||||||||||||||||||||||| |||||||| |||||||| ||||| ||| |      || ||||     | ||    |   ||   | ||||| | | | |   |          | |   |       |    | ||  |||    
TATTTTAAAAATACACTCGAGGAAAATGAATTTGATGCGTGGGATCGATCTGAAGAAGATTGCAGAGAAGATGAATGGTGCATCTGGTGCAGAGCTCAAGgtctgtttccacttcatttattttttatttcagataaaaaggcatttctcctcttatgaacaagttgtaggtaggctgttcttttcaattggtcctcgtt----

upper sequence: LOC_Os06g39870.1 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv04s0008g04690.t01 (Vitis vinifera), 5'ss of exon 8
TATCTTGAAGATTCATTCAAGAAAAATGAACTTGATGCGTGGCATTGATCTGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatagttgacacttatg-agccaattt-tctaaaatacttctcatttcaagct--gatacaaatatcatgaactgaaacaaatccaggcccagttataa
||| ||||| || || ||||||||||||||||| |||||||| ||||||||||| ||||| ||||||||||||||||| |||||||| |||||||||||||| | |  |   | ||    |  ||  | | | ||| ||     ||   |||    ||  | |    | |   |    |   |     |  |   |        
TATTTTGAAAATCCACTCAAGAAAAATGAACTTAATGCGTGGGATTGATCTGAAGAAGATAGCAGAGAAGATGAATGGTGCATCTGGTGCAGAGCTTAAGgtatattaatcagtcatgcgtacagttactctatctgaatggtctcctgttttgctctttggttttgagagacttgcttatgatggtccatgattcttcc----

upper sequence: LOC_Os06g39870.1 (Oryza sativa), 5'ss of exon 6
lower sequence: PP1S7016_1V6.1 (Physcomitrella patens), 5'ss of exon 3
TATCTTGAAGATTCATTCAAGAAAAATGAACTTGATGCGTGGCATTGATCTGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag-ttgacacttat--gagccaattttctaaaatacttctcatttcaagctgatacaaa----tatcatgaactgaaacaaatccaggcc---cagttataa-----------------------
|||  | || |||||||||||||| |||||| | ||||| || |||||| |||| || ||||| |||||||||   || ||||| || || ||||| |||||   || |     ||| |     | |   ||||     | |  | |  |    |||||| || |      | |  |    |     ||||   |||    |  |||||                        
TATTCTCAAAATTCATTCAAGAAAGATGAACCTCATGCGAGGTATTGATTTGAAGAAAATTGCTGAGAAGATGGGAGGTGCATCAGGGGCTGAGCTCAAGgtagctacaaacctacagtatctagggtttatttctggtagtgatacgaag--gaagctgctagaggcttttgtattatgttatttaaaattttggctgttcgtttatactaattttttattgcttcaatcag

upper sequence: LOC_Os06g39870.1 (Oryza sativa), 5'ss of exon 6
lower sequence: PP1S245_17V6.1 (Physcomitrella patens), 5'ss of exon 8
TATCTTGAAGATTCATTCAAGAAAAATGAACTTGATGCGTGGCATTGATCTGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag------ttgacacttatgagccaattttctaaaatacttct-cattt-----caagctgatacaaatatcatgaactgaaacaaatccaggcccagttataa------------------------------
               |||||| || |||||||| ||||| || |||||| |||| |||||||| || ||||||   || ||||||||||| ||||||||||    ||  |      ||   ||| | ||| |  | || |   | | |||| || ||     ||   |  |     | |  |   ||     |  |    |      | | |                              
---------------TTCAAGGAAGATGAACTTAATGCGAGGTATTGATTTGAAGAAGATTGCTGAAAAGATGGGAGGCGCATCTGGAGCTGAGCTTAAGGCAATTACTGGCCCTgttcctactaaagagtcgttgttttgtcacatttctgcaattagacacagttttttgtgctttttcttttcttttctatttgtttgtttttctcttaatgtttaataatctttgtgctgtcattcag

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|88379479|gb|CI511196.1|CI511196
EST:     TGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88255041|gb|CI353865.1|CI353865
EST:     TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATTTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88834409|gb|CI077692.1|CI077692
EST:     TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|89188460|gb|CI115709.1|CI115709
EST:     TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88956693|gb|CI092882.1|CI092882
EST:     TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88564465|gb|CI495182.1|CI495182
EST:     GCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGANAGAAGGGTTCAT
genomic: GCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88287000|gb|CI500060.1|CI500060
EST:     AAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: AAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88418799|gb|CI506560.1|CI506560
EST:     TGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88461821|gb|CI506897.1|CI506897
EST:     TTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         NCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|86498324|gb|CI140957.1|CI140957
EST:     TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|29655701|gb|CB651976.1|CB651976
EST:     TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88303189|gb|CI505801.1|CI505801
EST:     TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88464893|gb|CI512198.1|CI512198
EST:     GAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: GAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|86425523|gb|CI070620.1|CI070620
EST:     TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88566813|gb|CI497530.1|CI497530
EST:     GGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: GGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|13420354|gb|AU174444.1|AU174444
EST:     TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88509126|gb|CI436632.1|CI436632
EST:     TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88561729|gb|CI492446.1|CI492446
EST:     TGAAAAAGATTGCAGAGAAGATTAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGTTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGGTTCA
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAA-GGGTTCA
EST: gi|88434395|gb|CI501821.1|CI501821
EST:     TGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88564797|gb|CI495514.1|CI495514
EST:     TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|25803586|gb|CA759547.1|CA759547
EST:     TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88561811|gb|CI492528.1|CI492528
EST:     TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88288040|gb|CI512717.1|CI512717
EST:     TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88278839|gb|CI397643.1|CI397643
EST:     TTAAAAAGATTGCAGAGAAGAT-AATGGGGCATCTGGAGCAGAGCGTAAG                         GCGGTCTGCACGGAAGCACGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88267213|gb|CI379148.1|CI379148
EST:     TGAAAAAGATTGCAGAGAAGATTAATGGGGCATCTGGACCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATTTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88287065|gb|CI500125.1|CI500125
EST:     AAAAAGATTNCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGTTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: AAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88454826|gb|CI511798.1|CI511798
EST:     GATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: GATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88301739|gb|CI503205.1|CI503205
EST:     GGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: GGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88562984|gb|CI493701.1|CI493701
EST:     TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGTTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88475542|gb|CI412813.1|CI412813
EST:     TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88318427|gb|CI503497.1|CI503497
EST:     GAAGATGAATGGGGCATCTGGAGCAGAGCTTAA-                         GCGGTTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCA
genomic: GAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGG-TCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCA
EST: gi|86427557|gb|CI072654.1|CI072654
EST:     TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|86251531|gb|CI016820.1|CI016820
EST:     TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: TGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88566781|gb|CI497498.1|CI497498
EST:     GAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: GAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88285187|gb|CI504858.1|CI504858
EST:     GATGAATGGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: GATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
EST: gi|88318688|gb|CI508284.1|CI508284
EST:     ATTGCAGAGAAGATGAATNGGGCATCTGGAGCAGAGCTTAAG                         GCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT
genomic: ATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCAT

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), 64 (downstream exon)
Score: 11

TATCTTGAAGATTCATTCAAGAAAAATGAACTTGATGCGTGGCATTGATCTGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatag ... tgggtttcagGCGGTCTGCACGGAAGCAGGAATGTTTGCCCTTCGCGAGAGAAGGGTTCATGTCAACCAGGAGGATTTCTTGATGGCGGTGGCGAAGGTGATGAAGAAGG




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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
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TATCTTGAAGATTCATTCAAGAAAAATGAACTTGATGCGTGGCATTGATCTGAAAAAGATTGCAGAGAAGATGAATGGGGCATCTGGAGCAGAGCTTAAGgtgtgtatagttgacacttatgagccaattttctaaaatacttctcatttcaagctgatacaaatatcatgaactgaaacaaatccaggcccagttataa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaacaaa