Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACGCCGCCCGAGCACCACCGGAGCAGGAGCAGCGTCAGCCATGGCCGTCGGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttacctctcccccccaccctcctcgtccgtccttcttcctttcgctcttggttgccatggcgcatgggtgttgatgtggcttcctgctcgttcgtttttcttgcag

Basic information

species Oryza sativa
transcript LOC_Os12g21798.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g21798.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA10G39050.1 (Glycine max), 5'ss of exon 1
--GACGCCGCCCGAGCACCACCGGAGCAGGAGCAGCGTCAGCCATGGCCGTCGGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttacctctcccccccaccctcctcgtccgtccttcttcctttcgctcttggttgccatggcgcatgggtgttgatgtggcttcctgctcgttcgtttttcttgcag
    |  |  | |        || | |   | ||| |  ||||||||||||||| ||||||||||| ||||| ||||||||||||||   |||||||||| ||| ||| |    || ||        ||| | |   ||  | ||  ||  | | ||| ||    |  |         |  |||  |  |   | | ||  ||   | | ||||
TCATCCGCAGCTGCTTTTATTCGCACCGCAAACAGTG--AGCCATGGCCGTCGGAAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGTGGCAAGAAGAAGGCgttagtat----cttccatttcttttccccttttctctgttttatttgtgtttttgctt----taacattcaaaattcaatgacgtgtttggtttgtgtgtgaatgt-gcag

upper sequence: LOC_Os12g21798.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA20G28780.3 (Glycine max), 5'ss of exon 1
GACGCCGCC-CGAGCACCACCGGAGCAGGAGCAGCGTCAGCCATGGCCGTCGGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttacctctcccccccaccctcctcgtccgtccttcttcctttcgctcttg-gttgccatggcgcatg-ggtgttgatgtggcttcctgctcgttcgtttttcttgcag
  ||| ||  |    |    |   |||     |  || ||||||||||||||| ||||||||||| ||||| || ||||| |||||   |||||||||| ||| |||  | ||  |    | |  | |||  |   ||  | |   ||  | | ||| |||  |||     ||   ||| |  ||| | ||  ||   |   ||           
-CCGCAGCTGCTGTTATTCGCACCGCAAACAAACAGTGAGCCATGGCCGTCGGAAAGAACAAGCGCATCTCCAAAGGGAAAAAGGGTGGCAAGAAGAAGGCgttagt--atcttccgtttctattcccct--ttattctgtttcatttgtgtttttgcgttatcattcaaaattcagtggttttgttggtttttgtatgaatgtgcag-------

upper sequence: LOC_Os12g21798.1 (Oryza sativa), 5'ss of exon 1
lower sequence: EDP08964 (Chlamydomonas reinhardtii), 5'ss of exon 1
GACGCCGCCCGAGCACCACCGGAGCAGGAGCAGCGTCAGCCATGGCCGTCGGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttacctctcccccccaccctcctcgtccgtccttcttcctttcgctcttggttgccatggcgcatgggtgttgatgtggcttcctgctcgttcgtttttcttgcag
               ||    |   |  | | |   || ||||||| ||||||||||||||||| |||   |||||||||||||||  |||||||||| ||| |||   ||    | |  | ||| |  |  ||  |||   ||   | ||||   |||  |   |||||                                          
------------CAGCCGTTTGTTGACTACCGGTAGCAACCATGGCTGTCGGCAAGAACAAGCGCATCAGCAAGGGGAAGAAGGGAGGCAAGAAGAAGGCgtaagtcggccat--ctctgcgcccgcgaccccca-cctcgctcacctggctc---gttttctgcgcgcag-----------------------------------------

upper sequence: LOC_Os12g21798.1 (Oryza sativa), 5'ss of exon 1
lower sequence: PP1S17_306V6.1 (Physcomitrella patens), 5'ss of exon 1
GACGCCGCCCG--AGCACCACCGGAGCAGGAGCAGCGTCAGCCATGGCCGTCGGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtga-gtttacctctcccccccaccctcctcgtccgtcc--ttcttcctttcgctcttggttgccatggcgcatgggtgttgatgtggcttcctgctcgttcgtttttcttgcag
  | | || |   | ||   |    ||        |  |||||||||| ||||| ||||||||||||||||| ||||||||||||||   ||||||||| | || | ||   |       |    | ||   || | |||   |   |  ||||  | |||   |  || | |  |   || | |  || |  | ||   ||          |||||
--CCCTGCTCATCATCATATCTCTTGCTACTCTGTCTGCAGCCATGGCTGTCGGGAAGAACAAGCGGATCTCCAAGGGGAAGAAGGGTGGCAAGAAGAAAATgtaacgtccgctggctgtctgagctctttacgacagtcgaatgtgtaatttcatttttgtgagttattgagggtttctgctaacttgacgacgtgggagtgg------tgtgcag

upper sequence: LOC_Os12g21798.1 (Oryza sativa), 5'ss of exon 1
lower sequence: PP1S46_147V6.1 (Physcomitrella patens), 5'ss of exon 1
GACGCCGCCCGAGC-ACCACCGGAGCAGGAGCAGCGTCAGCCATGGCCGTCGGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttacctctcccccccaccctcctcgtccgt-ccttcttcctttcgct--------------cttggttgccatggcgcatgggtgttgatgtggcttcctgctc-gttcgtttttcttgcag----------------------------------------------
|   | ||    ||     | |||       |   | ||||||||||||| || ||||||||||| || || |||||||||||||||  ||||||||| | ||    |  ||    | | |  | |||    | |||  |||| | ||| |  |              ||    | || ||||   | ||||| ||  |   |   ||| | | | |  | |  ||  |                                              
GCTTCTGCTGCTGCTGTTGCTGGAATTCCT-CTTTGGCAGCCATGGCCGTGGGGAAGAACAAGCGCATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgt--actctcccacactctctgcgctctgtattcgtgtcttcatgcttgcattgtgtctcccgcgagctctcgttccgtggcctttaggtgtggagctttttatgtgccctggtggaatgtgctgtggctcacatgagttctgattagagtggcggtggttttttgcattgtag

upper sequence: LOC_Os12g21798.1 (Oryza sativa), 5'ss of exon 1
lower sequence: PP1S179_15V6.1 (Physcomitrella patens), 5'ss of exon 1
-GACGCCGCCCGAGCACCACCGGAGCAGGAGCAGCGTCAGCCATGGCCGTCGGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttacctctcccccccaccctcctcgtccgtccttcttcctttcgctcttggttgcc-----atggcgcatgggtgtt-gatgtggcttcctgctcgttcgtttttcttgcag
    ||| ||| |   |  |||  ||     |  |  || | ||||| |||||||||||||||||||| || ||||| ||||||||   ||||||||| | ||     | ||   ||   ||  ||    | |||         | | | | | |  |||||      |||   | || |  || | | |  | |   | | ||| |  | |  |||||
CCCTGCCTCCC-ACTGCTGCCGCTGCTCCGTCCTCCGCAACAATGGCGGTCGGCAAGAACAAGCGGATTTCCAAGGGAAAGAAGGGTGGCAAGAAGAAAATgtacaccttccctaccttgccctccattacctccagtgccgcacttgtaggtttgtgttgcttccaaatgttccttgagcatttggtctaacatggagat-gtttgagtcttgtgcag

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

upper sequence: LOC_Os12g21798.1 (Oryza sativa), 5'ss of exon 1
lower sequence: PP1S80_113V6.1 (Physcomitrella patens), 5'ss of exon 1
GACGCCGCCCGAGCACCACCGGAGC-AGGAGCAGCGT-CAGCCATGGCCGTCGGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttacctctcccccccaccctcc-----tcgtccgtccttcttcctttcgctcttggttgccatggcgcatgggtgttgatgtggcttcctgctcgttcgtttttcttgcag---------------
     |     ||| |   ||  || |  ||||  || |||||||||| ||||||||||| || || ||||||||||| |||||||||  ||||||||| | ||     |  |  || ||  | |  | |     | |    | |    ||||   || || | |||   |   |  | |  |||  |||   || |  | | ||           | |               
--TTGCAGGGAAGCTCTCTCGTGGCCATTAGCATTGTGCAGCCATGGCGGTCGGCAAGAATAAACGTATCTCGAAGGGAAAGAAGGGAGGCAAGAAGAAAATgtagcgctctccttctccttctctttacaggaatggctaattcgctgtcctgctgcgctggtttgagtttaggtttcgaggtttgtgtttgtttccacgcattgacgcggaggacggtgggatgtaatgcag

upper sequence: LOC_Os12g21798.1 (Oryza sativa), 5'ss of exon 1
lower sequence: PP1S80_120V6.1 (Physcomitrella patens), 5'ss of exon 1
GACGCCGCCCGAGCACCACCGGAGCAGGAGCAGCGTCAGCCATGGCCGTCGGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttacctctcccccccaccctcc-----tcgtccgtccttcttcctttcgctcttggttgccatggcgcatgggtgttgatgtggcttcctgctcgttcgtttttcttgcag---------------
                                       ||||||| ||||||||||| || || ||||||||||| |||||||||  ||||||||| | ||     |  |  || ||  | |  | |     | |    | |    ||||   || || | |||   |   |  | |  |||  |||   || |  | | ||           | |               
---------------------------------------CCATGGCGGTCGGCAAGAATAAACGTATCTCGAAGGGAAAGAAGGGAGGCAAGAAGAAAATgtagcgctctccttctccttctctttacaggaatggctaattcgctgtcctgctgcgctggtttgagtttaggtttcgaggtttgtgtttgtttccacgcattgacgcggaggacggtgggatgtaatgcag

upper sequence: LOC_Os12g21798.1 (Oryza sativa), 5'ss of exon 1
lower sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 1
GACGCCGCCCGAGC-ACCACCGGAGCAGGAGCAGCGTCAGCCATGGCCGTCGGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttacctctcccccccaccctcctcgtccgtccttcttcctttcgctcttggttgccatggcgcatgggtgttgatgtggcttcctgctcgttcgtttttcttgcag
  || |   | |||  |  |    ||     |  |  |||||||||| ||||| |||||||||||||| || |||||||| |||||    |||||||| | ||  || ||  |    |         | | ||  |   ||       |   | | |||||  |      |    |||     ||  ||  |  | || ||| ||   |||||
-CCGTCTTGCCAGCCGCTGCTTCTGCCTCGTCCTCTGCAGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaaattcaacatg-----gcgttgtgaggtttttggtgggtttttgtgggttgtgagcatttaaaactgtcatattgatttttt--ttgtgcgtcttg--tgcag

upper sequence: LOC_Os12g21798.1 (Oryza sativa), 5'ss of exon 1
lower sequence: EFJ09763 (Selaginella moellendorffii), 5'ss of exon 2
GACGCCGCCCGAGCACCACCGGAGCAGGAGCAGCGTCAGCCATGGCCGTCGGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagt--ttacctctcccccccaccctcctcgtccgtccttcttcctttcgctcttggttgccatggcgcatgggtgttgatgtggcttcctgctcgttcgtttttcttgcag
                                                     |||||||||||||| || ||||| |||||||||  ||||||||| | || |||  ||  | |  |      ||  | |  |   | |||||| | |  |                                                              
----------------------------------------------------GAAGAACAAGCGGATTTCCAAGGGAAAGAAGGGAGGCAAGAAGAAAATgtaagtgtttggcgcagcgttttgcctgcttgat---ttcttctttcctcag--------------------------------------------------------------

upper sequence: LOC_Os12g21798.1 (Oryza sativa), 5'ss of exon 1
lower sequence: EFJ09804 (Selaginella moellendorffii), 5'ss of exon 2
GACGCCGCCCGAGCACCACCGGAGCAGGAGCAGCGTCAGCCATGGCCGTCGGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttacctctcccccccaccctcctcgtccgtccttcttcctttcgctcttggttgccatggcgcatgggtgttgatgtggcttcctgctcgttcgtttttcttgcag
                                                     |||||||||||||| || ||||| |||||||||  ||||||||| | || |||     || | |  |      | |||    |  | |||  ||||     | |||                                                     
----------------------------------------------------GAAGAACAAGCGGATTTCCAAGGGAAAGAAGGGAGGCAAGAAGAAAATgtaagt--gtttcgcgcagcgttttgcttcgattttattgcttgatttcttctgtcgttag---------------------------------------------------

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|58684406|gb|CK073093.1|CK073093
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|87006042|gb|CI289459.1|CI289459
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|117216849|gb|CT845233.1|CT845233
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|88352366|gb|CI615620.1|CI615620
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|88398529|gb|CI595930.1|CI595930
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|44675333|gb|CR288767.1|CR288767
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGACGGATTGGTATGATATCAATGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|58686699|gb|CK075386.1|CK075386
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|88396444|gb|CI600927.1|CI600927
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|87023682|gb|CI286433.1|CI286433
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|88390567|gb|CI609192.1|CI609192
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|33812109|gb|CF331944.1|CF331944
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|88388997|gb|CI595231.1|CI595231
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGCTCGG
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCG-TCGG
EST: gi|58670980|gb|CK059666.1|CK059666
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|88426821|gb|CI584184.1|CI584184
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|218490212|gb|FG960812.1|FG960812
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|38477979|gb|CF962112.1|CF962112
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|88424522|gb|CI608108.1|CI608108
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|38473073|gb|CF957205.1|CF957205
EST:     GGCGAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|218500733|gb|FG957743.1|FG957743
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|9884533|gb|BE607366.1|BE607366
EST:     GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGT

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), 71 (downstream exon)
Score: 100

GACGCCGCCCGAGCACCACCGGAGCAGGAGCAGCGTCAGCCATGGCCGTCGGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttac ... tttcttgcagCGTCGATCCTTTTGCGAAGAAGGATTGGTATGATATCAAGGCCCCGTCGGTGTTCAACGTGAGAAACGTCGGGAAGACGCTCGTGTCCAGGACACAGGGC




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACGCCGCCCGAGCACCACCGGAGCAGGAGCAGCGTCAGCCATGGCCGTCGGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttacctctcccccccaccctcctcgtccgtccttcttcctttcgctcttggttgccatggcgcatgggtgttgatgtggcttcctgctcgttcgtttttcttgcag

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