Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCGCCGCCGCCGCCGCCGAGCGCCTGGAGCAGCGTCAGCCATGGCCGTAGGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccctcctgcccaccgttctctcctcctcctcctgcttagagatccaaaccccttcatttttactcgctagtcgctacatgggttgttgatgcagctttgcatttcttgcag

Basic information

species Oryza sativa
transcript LOC_Os03g10340.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g10340.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA10G39050.1 (Glycine max), 5'ss of exon 1
CGCGCCGCCGCCGCCGCCGAGCGCCTGGAGCAGCGTCAGCCATGGCCGTAGGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccctcctgcccaccgttctctcctcctcctcctgcttagagatccaaaccccttcatttttactcgctagtcgc-tacatgggttgttgatgcagctttgcatttcttgcag
    |||| || ||       |||   |   |  || |||||||||||| || ||||||||||||||||||||||||||||||||   |||||||||| ||| |||  | |||     |    | |  ||   | |||    |||    |       | || |  || |      | |  | |   ||| ||||   ||    | ||||          
TCATCCGCAGCTGCTTTTATTCGCACCGCAAACAGTGAGCCATGGCCGTCGGAAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGTGGCAAGAAGAAGGCgttagtatcttcc-----atttcttttccccttttctctgttttatttgtgtttttgctttaacattcaaaattcaatgacgtgtttggtttgt--gtgtgaatgtgcag---------

upper sequence: LOC_Os03g10340.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA20G28780.3 (Glycine max), 5'ss of exon 1
CGCGCCGCCGCCGCCGCCGAGCGCCTGGAGCAGC--GTCAGCCATGGCCGTAGGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccctcctgcccaccgttctctcctcctcctcctgcttagagatccaaaccccttcatttttactcgctagtcgctacatgggttgttgatgcagctttgcatttcttgcag
  ||| || || |       || ||   | ||    || |||||||||||| || |||||||||||||||||||| ||||| |||||   |||||||||| ||| |||  | |||      |  ||| |   |  ||    |  || | | |     |    |||||   | |    ||| | |   | |||| ||| |     | ||||          
-CCGCAGCTGCTGTTATTC-GCACCGCAAACAAACAGTGAGCCATGGCCGTCGGAAAGAACAAGCGCATCTCCAAAGGGAAAAAGGGTGGCAAGAAGAAGGCgttagtatcttcc--gtttctattcccctttattctgtttcatttgtg-tttttgcgttatcattcaaaatt--cagtggttttgttggtttttg-tatgaatgtgcag---------

upper sequence: LOC_Os03g10340.1 (Oryza sativa), 5'ss of exon 1
lower sequence: EDP08964 (Chlamydomonas reinhardtii), 5'ss of exon 1
CGCGCCGCCGCCGCCGCCGAGCGCCTGGAGCAGCGTCAGCCATGGCCGTAGGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagt--gccctcct---gcccaccgttctctcctcctcctcctgcttagagatccaaaccccttcatttttactcgctagtcgctacatgggttgttgatgcagctttgcatttcttgcag
          | ||||      | ||  | | |   || ||||||| || || |||||||||||||||  ||||||||||||||||  |||||||||| ||| |||  ||| ||     |||| |    | | ||||   | ||||  | |   ||    | |                                                            
----------CAGCCGTTTGTTGACT--ACCGGTAGCAACCATGGCTGTCGGCAAGAACAAGCGCATCAGCAAGGGGAAGAAGGGAGGCAAGAAGAAGGCgtaagtcggccatctctgcgcccgcgacccccacctcgctcacctggctcgttttctgcgcgcag----------------------------------------------------------

upper sequence: LOC_Os03g10340.1 (Oryza sativa), 5'ss of exon 1
lower sequence: PP1S17_306V6.1 (Physcomitrella patens), 5'ss of exon 1
CGCGCCGCCGCCGCCGCCG-AGCGCCTGGAGCAGCGTC---AGCCATGGCCGTAGGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccctcctgcccaccgttctctcctcctcctcctgcttagagatccaaaccccttcatttttactcgctagtcgctacatgggttgttgatgcagctttgcatttcttgcag
    ||     |  |  |  | | | ||   |   |||   ||||||||| || || ||||||||||| ||||||||||||||||||||   ||||||||| | || |  | || |  ||   | |  ||||   |  |   |   |  |  ||     |   ||  |   |  | |   ||  || | |   |||  || |  |    |  |    |||||
----CCCTGCTCATCATCATATCTCTTGCTACTCTGTCTGCAGCCATGGCTGTCGGGAAGAACAAGCGGATCTCCAAGGGGAAGAAGGGTGGCAAGAAGAAAATgt-aacgtccgctggctgtctgagctctttacgacagtcgaatgtgtaattt---catttttgtgagttattgagggtttctgc-taacttgacgacgtgg----gagtggtgtgcag

upper sequence: LOC_Os03g10340.1 (Oryza sativa), 5'ss of exon 1
lower sequence: PP1S174_49V6.1 (Physcomitrella patens), 5'ss of exon 1
CGCGCCGCCGCCGCCGCCGAGCGCCTGGAGCAGCGTCAGCCATGGCCGTAGGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc-tcctgcccaccgttctctcctcctcctcctgcttagagatccaaaccccttcattttt---actcgc--tagt-cgctacatgggttgttgatgcagctttgcatttcttgcag-------------------------------
                                         ||||| || || |||||||||||||| |||||||||||||||||   ||||||||| | ||  |  ||| |  |  |   |  ||||||   |||  |||   | |  |||       ||  ||       |||| |  | || || |   | || | ||||||    | ||    | |   |                                
-----------------------------------------ATGGCGGTCGGGAAGAACAAGCGCATTTCCAAGGGGAAGAAGGGTGGCAAGAAGAAAATgtacgctcccataatctctctctctctctctctctctccctcgctcgctatctctctttctctatcccccccactcacagtggtgcgtttattagggttttgatgtgtttgtgaggatttgagatgacatggcgatatcttctgagtcctacgcag

upper sequence: LOC_Os03g10340.1 (Oryza sativa), 5'ss of exon 1
lower sequence: PP1S46_147V6.1 (Physcomitrella patens), 5'ss of exon 1
CGCGCCGCCGCCGCCGCCGAGCGCCTGGAGCAGCGTCAGCCATGGCCGTAGGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccctcctgcccaccgttctctcctcct--cctcctgcttagagatccaaaccccttcatttttactcgctagtcgctacatg---ggttgttgatgcagctttgcatttcttgcag-------------------------------------------------
    | || || || |  |   |  |    |   | ||||||||||||| || |||||||||||||| ||||||||||||||||||  ||||||||| | ||     ||| |   | |  || ||| |  || |  | || |||||  |        |||      | |   ||  | | |  ||  ||    | | || |||   | | |       ||| |                                                 
GCTTCTGCTGCTGCTGTTGCTGGAATTCCTCTTTGGCAGCCATGGCCGTGGGGAAGAACAAGCGCATTTCCAAGGGGAAGAAGGGAGGCAAGAAGAAAATgtactctcccacactctctgcgctctgtattcgtgtcttcatgcttgcattgtgtctcccgcgagctctcgttccgtggcctttaggtgtggagctttttatgtgccctggtggaatgtgctgtggctcacatgagttctgattagagtggcggtggttttttgcattgtag

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

upper sequence: LOC_Os03g10340.1 (Oryza sativa), 5'ss of exon 1
lower sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 1
-CGCGCCGCC-GCCGCCGCCGAGCGCCTGGAGCAGCGTCAGCCATGGCCGTAGGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccctcctgcccaccgttctctcctcctcctcctgcttagagatccaaaccccttcatttttactcgctagtcgctacatgggttgttgatgcagctttgcatttcttgcag
 ||    ||| ||||| ||     |||| |  |   | |||||||||| || || ||||||||||| || ||||||||||| |||||    |||||||| | ||  ||           || | |    |  |     |  || |  |   |         |     ||||      |   |  | || | || ||  ||      ||| | |  |||||
CCGTCTTGCCAGCCGCTGCTTC-TGCCTCGTCCTCTG-CAGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgt----ctaaattcaacatggcgttgtgaggtttttggtgggtttttgtgggttgtgagcatttaa-----aactgtcatattgattttttttg------tgcgtcttgtgcag

upper sequence: LOC_Os03g10340.1 (Oryza sativa), 5'ss of exon 1
lower sequence: EFJ09763 (Selaginella moellendorffii), 5'ss of exon 2
CGCGCCGCCGCCGCCGCCGAGCGCCTGGAGCAGCGTCAGCCATGGCCGTAGGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc--tcctgcccaccgttctctcctcctcctcctgcttagagatccaaaccccttcatttttactcgctagtcgctacatgggttgttgatgcagctttgcatttcttgcag
                                                     ||||||||||| || |||||||| |||||||||  ||||||||| | || ||||       | ||     |    ||     || || | | |                                                                          
----------------------------------------------------GAAGAACAAGCGGATTTCCAAGGGAAAGAAGGGAGGCAAGAAGAAAATgtaagtgtttggcgcagcgttttgcctgcttgatttcttctttcctcag-----------------------------------------------------------------------

upper sequence: LOC_Os03g10340.1 (Oryza sativa), 5'ss of exon 1
lower sequence: EFJ09804 (Selaginella moellendorffii), 5'ss of exon 2
CGCGCCGCCGCCGCCGCCGAGCGCCTGGAGCAGCGTCAGCCATGGCCGTAGGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccctcctgcccaccgttctctcctcctcctcctgcttagagatccaaaccccttcatttttactcgctagtcgctacatgggttgttgatgcagctttgcatttcttgcag
                                                     ||||||||||| || |||||||| |||||||||  ||||||||| | || ||||   |   || || |||| |       |  |  |||||         |   | |   |  |||                                                 
----------------------------------------------------GAAGAACAAGCGGATTTCCAAGGGAAAGAAGGGAGGCAAGAAGAAAATgtaagtg---tttcgcgcagcgttttgcttcgattttattgcttg--------atttcttctgtcgttag------------------------------------------------

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|33664975|gb|CF295942.1|CF295942
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|568501|gb|D39350.1|D39350
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|33811313|gb|CF331546.1|CF331546
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|33687117|gb|CF315356.1|CF315356
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|58672107|gb|CK060793.1|CK060793
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|218488713|gb|FG953590.1|FG953590
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|58599886|gb|CK010414.1|CK010414
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|33794046|gb|CF322913.1|CF322913
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|2275899|gb|C24876.1|C24876
EST:     GGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|33659524|gb|CF282137.1|CF282137
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|218499634|gb|FG959031.1|FG959031
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|86829565|gb|CI286753.1|CI286753
EST:     CGCATCT-CAA-GGGAAGAAGGGATCCAAGAAGAAGA-                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: CGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|58599902|gb|CK010430.1|CK010430
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|88301630|gb|CI597323.1|CI597323
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|58595818|gb|CK006346.1|CK006346
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|33693693|gb|CF321932.1|CF321932
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|88311347|gb|CI570421.1|CI570421
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|38472275|gb|CF956406.1|CF956406
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|58587486|gb|CF985794.1|CF985794
EST:     AGAACAAGCGCATCTCCCAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGGCCCGTCGGT
genomic: AGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|58677042|gb|CK065729.1|CK065729
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|58612772|gb|CK040484.1|CK040484
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|38469895|gb|CF954026.1|CF954026
EST:     -GTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|33805842|gb|CF328800.1|CF328800
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|58691942|gb|CK080629.1|CK080629
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|55431597|gb|CV728814.1|CV728814
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|33817188|gb|CF334429.1|CF334429
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|58599812|gb|CK010340.1|CK010340
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|33661268|gb|CF292235.1|CF292235
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|29627211|gb|CB632222.1|CB632222
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|58680509|gb|CK069196.1|CK069196
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|58692773|gb|CK081460.1|CK081460
EST:     CCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAGGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: CCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|58596560|gb|CK007088.1|CK007088
EST:     GGTTAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|88300484|gb|CI587288.1|CI587288
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|2280748|gb|C25243.1|C25243
EST:     CAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: CAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|88367420|gb|CI566386.1|CI566386
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|33689922|gb|CF318161.1|CF318161
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|58661504|gb|CK050184.1|CK050184
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|163926487|gb|EG709999.1|EG709999
EST:     AACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: AACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
EST: gi|88394937|gb|CI607664.1|CI607664
EST:     GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGAC                         CGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT
genomic: GGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGT

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: 74 (upstream exon), 75 (downstream exon)
Score: 254

CGCGCCGCCGCCGCCGCCGAGCGCCTGGAGCAGCGTCAGCCATGGCCGTAGGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccc ... tttcttgcagCGTCGATCCCTTTGCTAAGAAGGACTGGTATGATATCAAGGCCCCGTCGGTGTTCAATGTGCGGAACATCGGCAAGACCCTCGTGTCCAGGACACAGGGT




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGCGCCGCCGCCGCCGCCGAGCGCCTGGAGCAGCGTCAGCCATGGCCGTAGGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccctcctgcccaccgttctctcctcctcctcctgcttagagatccaaaccccttcatttttactcgctagtcgctacatgggttgttgatgcagctttgcatttcttgcag

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