Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
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 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCAGCTCGCACGGAGCTTGTTTGCTGCTTCGACAGCAGCCATGGCCGTCGGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttctttccagtacttttctactgtgaattcacggctccactgcgtctgccaagtgtttgtgtactagctgtcttgagtgatggtttggtttctagggtttagtgtgcttgtgtggtatatgcggaggttctaactagagcgacgatgatttttgcactgcag

Basic information

species Physcomitrella patens
transcript PP1S219_50V6.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S219_50V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: LOC_Os12g21798.1 (Oryza sativa), 5'ss of exon 1
--TTCAGCTCGCACGGAGCTTGTTTGCTGCTTCGACAGCAGCCATGGCCGTCGGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttctttccagtacttttctactgtgaattcacggctccactgcgtctgccaagtgtttgtgtactagctgtcttgagtgatggtttggtttctagggtttagtgtgcttgtgtggtatatgcggaggttctaactagagcgacgatgatttttgcactgcag
    | || ||  |    |  |   || |   |  |  |||||||||||||||||||||||||||| || || |||||||||||||||  ||||||||| | ||   | |       || | ||  |       ||   |  |  |    |       |   |||  | | |     | || ||| || | ||| |||  |    | ||  | || | | | |                                             
GACGCCGCCCGAGCACCACCGGA--GCAGGAGCAGCGTCAGCCATGGCCGTCGGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagttt-------acctctcccccccaccctcctcgtccgtccttcttcctttcgctcttggttgccatggcgcatgggtgttgatgtggcttcctg---ctcgttcgtttttcttgcag--------------------------------------------

upper sequence: PP1S219_50V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: LOC_Os03g10340.1 (Oryza sativa), 5'ss of exon 1
TTCAGCTCGCACGGAGCTTGTTTGCTGCTTCGACAGCAGCCATGGCCGTCGGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttctttccagtacttttctactgtgaattcacggctccactgcgtctgccaagtgtttgtgtactagctgtcttgagtgatggtttggtttctagggt-ttagtgtgcttgtgtggtatatgcggaggttctaactagagcgacgatgatttttgcactgcag
  |  | |   ||  ||       |||   |  |  ||||||||||||| || ||||||||||| || ||||||||||||||||||  ||||||||| | ||          ||| |  | || |      ||| |  |||| |  |  ||||  || | |      |      | || | |      | | |   | || | ||  ||    | ||   |   ||| |                                      
CGCGCCGCCGCCGCCGCCGAGCGCCTGGAGCAGCGTCAGCCATGGCCGTAGGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtg---------agtgccctcctgcccaccgttctctcctcctcctc--ctgcttagagatccaaaccccttcatttttactcgctagtcgctacatgggttgttgatgcagctttgcatttcttgcag--------------------------------------

upper sequence: PP1S219_50V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: LOC_Os02g18550.1 (Oryza sativa), 5'ss of exon 1
TTCAGCTCGCACGGAGCTTGTTTGCTGCTTCGACAGCAGCCATGGCCGTCGGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttctttccagtacttttctactgtgaattcacggctccactgcgtctgccaagtgtttgtgtactagctgtcttgagtgatggtttggtttctagggtttagtgtgcttgtgtggtatatgcggaggttctaactagagcgacgatgatttttgcactgcag
  |  |     |  | |      |  |       ||||||||||||||| |||||||||||| | || |||||||| | ||||||  |||||||||| | |||      |   |  |        ||||    |    |  | |  | |||   |  || |||| |  |   ||   |   ||  || ||    | | ||  ||  | |  || | |  | |  | |  ||| |                                
CACTCCCAAACCCTAACCCCGGAGGAGAGGGAGGAGCAGCCATGGCCGTGGGCAAGAACAAGAGGATCTCCAAGGGCAGGAAGGGCAGCAAGAAGAAGACgtaagctgctt--gcgcgcgggcggtgtgggcgccacacctctcgtcctctctgagctgcttgt-tcttgcttggggtttttgggggattctgatttgggacttcttctctttttctc-tctccgtgtgggtgcag------------------------------

upper sequence: PP1S219_50V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA10G39050.1 (Glycine max), 5'ss of exon 1
TTCAGCTCGCACGGAGCTTGTTTGCTGCTTCGACAGC-AGCCATGGCCGTCGGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgt-acttctttccagtacttttctactgtgaattcacggctccactgcgtctgccaagtgtttgtgtactagctgtcttgagtgatggtttggtttctagggtttagtgtgcttgtgtggtatatgcggaggttctaactagagcgacgatgatttttgcactgcag
 ||| |     | |   || || ||  |    ||||  ||||||||||||||| ||||||||||| || ||||||||||||||||| |||||||||||   || | |   ||||| | ||||||  || |    || | | |  | |           |||||| ||   || |  ||   | | |  |    ||||   || ||  |||||  ||||  |                                               
-TCATCCGCAGCTGCTTTTATTCGCACCGCAAACAGTGAGCCATGGCCGTCGGAAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGTGGCAAGAAGAAGGCgttagtatcttccatttcttttccccttt----tctctgttttattt----------gtgtttttgctttaacattcaaaattcaatgacgtgttt---ggtttgtgtgtgaatgtgcag-----------------------------------------------

upper sequence: PP1S219_50V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA20G28780.3 (Glycine max), 5'ss of exon 1
-TTCAGCTCGCACGGAGCTTGTTTGCTGCTTCGACAGC-AGCCATGGCCGTCGGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttctttccagtacttttctactgtgaattcacggctccactgcgtctgccaagtgtttgtgtactagctgtcttgagt-gatggtttggtttctagggtttagtgtgcttgtgtggtatatgcggaggttctaactagagcgacgatgatttttgcactgcag
   ||||| ||  |    | |            ||||  ||||||||||||||| ||||||||||| || ||||| ||||| ||||| |||||||||||   ||          ||||  || |   | |  |||| |  ||  | |  || |     |||||| ||   || |  ||   | |   |||||| |||    || ||| || ||  ||||  |                                               
CCGCAGCT-GC-TGTTATTCGCACCGCAAACAAACAGTGAGCCATGGCCGTCGGAAAGAACAAGCGCATCTCCAAAGGGAAAAAGGGTGGCAAGAAGAAGGCgt---------tagtatcttccgtttct--attccc--ctttattctgtttcatttgtgtttttgcgttatcattcaaaattcagtggttttgtt----ggtttttgtatgaatgtgcag-----------------------------------------------

upper sequence: PP1S219_50V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA11G00890.1 (Glycine max), 5'ss of exon 1
----TTCAGCTCGCA-CGGAGCTTGTTTGCTGCTTCGACAGCAGCCATGGCCGTCGGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttctttccagtacttttctactgtgaattcacggctccactgcgtctgccaagtgtttgtgtactagctgt-cttgagtgatggtttggtttctagggtttagtgtgcttgtgtggtatatgcggaggttctaactagagcgacgatgatttttgcactgcag
      ||||| | | | ||||      ||  | | ||    ||| ||||| ||||| ||||| ||| | ||||||||||| |||||||| ||||||||||||  ||  |  |  ||| | | ||           |||||   |  | |   ||    ||    |  | |  |   | | |||  |||||      |                                                                          
CAGCCGCAGCTTGAAACAGAGCAGA---GCGACCTTGAAG--AGCTATGGCTGTCGGAAAGAATAAGAGGATTTCCAAGGGAAAGAAGGGTGGCAAGAAGAAAGCgt--tagtgcccattcccttc----------ttcactcttttattctctcctttaaactctgatttctttcttcttcttccgtgattccacag--------------------------------------------------------------------------

upper sequence: PP1S219_50V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA01G44700.1 (Glycine max), 5'ss of exon 1
TTCAGCTCGCACGGAGCTTGTTTGCTGCTTCGAC---AGCAGCCATGGCCGTCGGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttctttccagtacttttctactgtgaattcacggctccactgcgtctgccaagtgtttgtgtactagctgtcttgagtgatggtttggtttctagggtttagtgtgcttgtgtggtatatgcggaggttctaactagagcgacgatgatttttgcactgcag
  |||| |||||   | ||    || |      |   |  ||| ||||| ||||| ||||| ||| | ||||||||||| |||||||| ||||||||||||  ||   |  | ||  | || ||| ||| |   ||      |    |   |||        ||   ||| |  |  | || | |  || |||| ||        ||  | | |||  |||  ||   | |                                      
--CAGC-CGCACCTTGATTCAGAGCAGAGCGACCTTGAAGAGCTATGGCTGTCGGAAAGAATAAGAGGATTTCCAAGGGAAAGAAGGGTGGCAAGAAGAAAGCgt---tagtgcccattctcttc-acttttttttttttttttttttatttcta-------ttgtcgtattctccattttaactc-tgatttgtttc-------ttcttcttcttccgtga-atccacag--------------------------------------

upper sequence: PP1S219_50V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: Vv05s0020g03900.t01 (Vitis vinifera), 5'ss of exon 2
TTCAGCTCGCACGGAGCTTGTTTGCTGCTTCGACAGCAGCCATGGCCGTCGGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttctttccagtacttttctactgtgaattcacggctccactgcgtctgccaagtgtttgtgtactagctgtcttgagtgatggtttggtttctagggtttagtgtgcttgtgtggtatatgcggaggttctaactagagcgacgatgatttttgcactgcag
                                                     ||||||||| | ||||||||||| || |||||||||||||||||   ||          ||| |  |   ||     | |||    |  | |  | ||    |   | ||| | || | | | |    |  || | |  |   |   |                                                                 
----------------------------------------------------GAAGAACAAGAGGATTTCCAAGGGAAAAAAGGGAGGCAAGAAGAAGGCgtg---------agtgcaatatcacaacttaatcaaattttgaattggccttatcaacttctgt-tgcttgatttttca--tcctgatataatcaatgcag-----------------------------------------------------------------

upper sequence: PP1S219_50V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: Vv14s0030g01810.t01 (Vitis vinifera), 5'ss of exon 2
TTCAGCTCGCACGGAGCTTGTTTGCTGCTTCGACAGCAGCCATGGCCGTCGGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttctttccagtacttttctactgtgaattcacggctccactgcgtctgccaagtgtttgtgtactagctgtcttgagtgatggtttggtttctagggtttagtgtgcttgtgtggtatatgcggaggttctaactagagcgacgatgatttttgcactgcag
                                                     || |||||| | |||||||||||||| |||||||| ||||||||   ||   |    | |  || |    ||   || |||     | || ||  |         ||||    |   | | ||        || |||| |||     ||||  | |  || | ||||      ||   ||   | |  | ||    |||| |||   ||||||
----------------------------------------------------GAAAAACAAGAGGATTTCCAAGGGGAAAAAGGGAGGAAAGAAGAAGGCgtgagttccacaa--acctaaaaacaacgagttctgattttcattgtcttgaattgacgttt-caaatctgttatc-------gtgttttgtttt-----gtttgttttttttttttggt------ggttatttggatttcatcggatttgatatttttgctgcag

upper sequence: PP1S219_50V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EDP08964 (Chlamydomonas reinhardtii), 5'ss of exon 1
TTCAGCTCGCACGGAGCTTGTTTGCTGCTTCGACAGCAGCCATGGCCGTCGGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttctttccagtacttttctactgtgaattcacggctccactgcgtctgccaagtgtttgtgtactagctgtcttgagtgatggtttggtttctagggtttagtgtgcttgtgtggtatatgcggaggttctaactagagcgacgatgatttttgcactgcag
         || |  | |||||  || |  ||  |||| ||||||| ||||||||||||||||| ||   |||||||||||||||||||||||||||   |||  ||   |     || | |  | | ||   | |  |  | ||      ||    | | || |  |                                                                                                  
---------CA-GCCGTTTGTTGACTAC--CGGTAGCAACCATGGCTGTCGGCAAGAACAAGCGCATCAGCAAGGGGAAGAAGGGAGGCAAGAAGAAGGCgtaagtcggccat---ctctgcgcccgcga--cccccacctcgctcacctggctcgttttctgcgcgcag------------------------------------------------------------------------------------------------

upper sequence: PP1S219_50V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EFJ09763 (Selaginella moellendorffii), 5'ss of exon 2
TTCAGCTCGCACGGAGCTTGTTTGCTGCTTCGACAGCAGCCATGGCCGTCGGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttctttc---cagtacttttctactgtgaattcacggctccactgcgtctgccaagtgtttgtgtactagctgtcttgagtgatggtttggtttctagggtttagtgtgcttgtgtggtatatgcggaggttctaactagagcgacgatgatttttgcactgcag
                                                     ||||||||||| ||||||||||| ||||||||||||||||||||||||||  | |||    |||   ||| |     ||| |||     ||| | |                                                                                                                        
----------------------------------------------------GAAGAACAAGCGGATTTCCAAGGGAAAGAAGGGAGGCAAGAAGAAAATgtaagtgtttggcgcagcgttttgcctgcttgatttcttctttcctcag------------------------------------------------------------------------------------------------------------------------

upper sequence: PP1S219_50V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EFJ11647 (Selaginella moellendorffii), 5'ss of exon 2
TTCAGCTCGCACGGAGCTTGTTTGCTGCTTCGACAGCAGCCATGGCCGTCGGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttctttccagtacttttctactgtgaattcacggctccactgcgtctgccaagtgtttgtgtactagctgtcttgagtgatggtttggtttctagggtttagtgtgcttgtgtggtatatgcggaggttctaactagagcgacgatgatttttgcactgcag
                                                     ||||||||||| ||||||||||| ||||| ||||||||||||||||||||  | |||   | |   || | ||  || || |  |||  | | | |||| |    |                                                                                                           
----------------------------------------------------GAAGAACAAGCGGATTTCCAAGGGAAAGAAAGGAGGCAAGAAGAAAATgtaagtgtttggcgcagcgttttgcttcgattttattgcttgatttcttctgtcgttag-----------------------------------------------------------------------------------------------------------

upper sequence: PP1S219_50V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EFJ09804 (Selaginella moellendorffii), 5'ss of exon 2
TTCAGCTCGCACGGAGCTTGTTTGCTGCTTCGACAGCAGCCATGGCCGTCGGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttctttccagtacttttctactgtgaattcacggctccactgcgtctgccaagtgtttgtgtactagctgtcttgagtgatggtttggtttctagggtttagtgtgcttgtgtggtatatgcggaggttctaactagagcgacgatgatttttgcactgcag
                                                     ||||||||||| ||||||||||| ||||||||||||||||||||||||||  | ||||  | |   || | ||  || || |  |||  | | | |||| |    |                                                                                                           
----------------------------------------------------GAAGAACAAGCGGATTTCCAAGGGAAAGAAGGGAGGCAAGAAGAAAATgtaagtgtttcgcgcagcgttttgcttcgattttattgcttgatttcttctgtcgttag-----------------------------------------------------------------------------------------------------------

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|162238339|gb|FC415881.1|FC415881
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|162219262|gb|FC395258.1|FC395258
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|162266508|gb|FC442544.1|FC442544
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|18367508|gb|BJ199591.1|BJ199591
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|162263546|gb|FC439575.1|FC439575
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|18365501|gb|BJ197578.1|BJ197578
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|67571923|gb|BJ944747.1|BJ944747
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|162260761|gb|FC435413.1|FC435413
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|162266098|gb|FC441847.1|FC441847
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|100445211|gb|BY982840.1|BY982840
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|162280003|gb|FC456189.1|FC456189
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|208390671|gb|DC937827.1|DC937827
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|18364001|gb|BJ196074.1|BJ196074
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|162268892|gb|FC445714.1|FC445714
EST:     GTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|208386756|gb|DC929202.1|DC929202
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|162258378|gb|FC434929.1|FC434929
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|162252182|gb|FC425860.1|FC425860
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|18373981|gb|BJ205559.1|BJ205559
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|162263260|gb|FC439068.1|FC439068
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|18371609|gb|BJ203211.1|BJ203211
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|67575749|gb|BJ948573.1|BJ948573
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|18356012|gb|BJ188071.1|BJ188071
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|67570168|gb|BJ942992.1|BJ942992
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|162259534|gb|FC435461.1|FC435461
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|18356228|gb|BJ188287.1|BJ188287
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|18360719|gb|BJ192782.1|BJ192782
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|18368054|gb|BJ200139.1|BJ200139
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|18347464|gb|BJ179510.1|BJ179510
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|162269620|gb|FC444851.1|FC444851
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|208365423|gb|DC950890.1|DC950890
EST:     GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: GGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
EST: gi|18373990|gb|BJ205568.1|BJ205568
EST:     AACAAGCGTNTTTCCAAGGGGAAGAAGGGAGGCAAGAANAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC
genomic: AACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACAC

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: 33 (upstream exon), 35 (downstream exon)
Score: 169

TTCAGCTCGCACGGAGCTTGTTTGCTGCTTCGACAGCAGCCATGGCCGTCGGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttcttt ... tgcactgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGACATCAAGGCACCCAACACCTTCACGCAGAAGAATTTGGGGAAGACTCTCGTCACTAGGACCGCGGGA




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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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCAGCTCGCACGGAGCTTGTTTGCTGCTTCGACAGCAGCCATGGCCGTCGGCAAGAACAAGCGTATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtacttctttccagtacttttctactgtgaattcacggctccactgcgtctgccaagtgtttgtgtactagctgtcttgagtgatggtttggtttctagggtttagtgtgcttgtgtggtatatgcggaggttctaactagagcgacgatgatttttgcactgcag

- - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA