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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctttatcaatgctttcagcttctttttttttttcctcctcatcatgttatagcattcggttttttagaagcatctgacccgtcttgttgcaatctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCTGATATTGCCCTGTTCCCCAATTCTCTGCCAGGAG

Basic information

species Oryza sativa
transcript LOC_Os07g26740.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g26740.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G160351_T03 (Zea mays), 3'ss of exon 2
gtctttatcaatgctttcagcttctttttttttttcctcctcatcatgttatagcattcggttttttagaagcatctgacccgtcttgttgcaatctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCTGATATTGCCCTGTTCCCCAATTCTCTGCCAGGAG
    | | ||     |  || |  ||       | | || | ||  |||     | || |  ||||      | |   | |   |||  ||   | | |||||||||||||||||||||||| |||||||| |||||||| ||||||||||| || || ||||||                                        
actctcaacacccgatcaaggtctttacggccatgcttcattattttgtgccctcgtttgtgtttt---gttctttgaagctaactt--tgtcctttaacttcagAGGTGCAAGCACTTTGAGATCGGTGGTGACAAGAAAGGCAAGGGAACCTCTCTGTTCTAA----------------------------------------

upper sequence: LOC_Os07g26740.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G160351_T01 (Zea mays), 3'ss of exon 3
gtctttatcaatgctttcagcttctttttttttttcctcctcatcatgttatagcattcggttttttagaagcatctgacccgtcttgttgcaatctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAG---ATGCTGATATTGCCCTGTTCCCCAATTCTCTGCCAGGAG
                        | |||         | |||| || || | ||  ||| || | |       | |||  | |    |||   | | |||||||||||||||||||||||| |||||||| |||||||| ||||||||||| || || |||||||   ||  | |  |||| | |   | ||| | |||| |||   
-----------------------gtctttacggccatgcttcattattttgt-gccctcgtttgtgttttgttctttgaagc-taactttgtcctttaacttcagAGGTGCAAGCACTTTGAGATCGGTGGTGACAAGAAAGGCAAGGGAACCTCTCTGTTCTAAGCGTATCATAAACTTGCTCAGGGTCTCAAGTATCTGTCAG---

upper sequence: LOC_Os07g26740.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA08G08030.1 (Glycine max), 3'ss of exon 3
gtctttatcaatgctttcagcttctttttttttttcctcctcatcatgttatagcattcggttttttagaagcatctgacccgtcttgttgcaatctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCTGATATTGCCCTGTTCCCCAATTCTCTGCCAGGAG
     ||| |  |  |    |     |||  ||||  |  |  || | ||     ||   ||   | |        |  | | |  ||||    | || || |||||||||||||| ||||| |||||||| ||||||||||| || ||||| || || |||||                                         
----gtataagcgtctcttcccgtcgtttcgtttttgtttttgtcgttttg----atcgcgtggctgatgcttgctttcctccttctgtt----tttgcctgcagAGGTGCAAGCATTTTGAGATCGGTGGTGACAAGAAGGGAAAAGGAACCTCTCTGTTCTAG----------------------------------------

upper sequence: LOC_Os07g26740.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA08G19320.2 (Glycine max), 3'ss of exon 3
gtctttat-caatgctttcagcttctttttttttttcctcctcatcatgttatagcattcggttttttagaagcatctgacccgtcttgttgcaatctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCTGAT---ATTGCCCTGTTCCCCAATTCTCTGCCAGGAG------------------------------
||   |||    |      | |     |||    |   |  |   ||||   |    |  || |  |     |   |||  |  | ||||||           |||||||||||||||||||| || ||||| |||||||||||||||||||| || || |||||   |||  ||     | | | | |    |  | || || | |                                
gttagtatatggtaaacaaaacaatggtttaaagtggttgtttggcatg---tgctgtgtggctaatggtttgttcctg-tctatgttgttgtg---------cagaggtgcaagcactttgagattggtggtgacaagAAGGGCAAGGGAACATCTCTGTTCTAGTTTGCGAATTAGGATTCGCAGCTTTTTATGTTTCAGCAATGTTGGAATCTTTTAGTTTCTCTCTGGATTTTTC

upper sequence: LOC_Os07g26740.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA05G24930.1 (Glycine max), 3'ss of exon 3
gtctttatcaatgctttcagc--ttctttttttttttcctcctcatcatgttatagcatt-cggttttttagaagcatctgacccgtcttgttgcaatctgactt-cagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAG----ATGCTGATATTGCCCTGTTCCCCAATTCTCTGCCAGGAG
     ||    ||| |  | |  |  ||||     |   |||  | |||| |    |||| | |||||  | | |    |||  | |  | |     ||||  || |||||||||||||||||||| |||||||| ||||||||||| || ||||| || ||||||||      ||  |   |||  |   ||| |  | ||||||       
-----tacttttgcctcaaacagtaattttgccactgattcccaaacatgct----cattgccgttttgaacacgtggttgatgcttgctatgtggttctgttttgcagAGGTGCAAGCACTTTGAGATCGGTGGTGACAAGAAGGGAAAAGGAACATCTCTCTTCTAGATGGAATATTAGAATTTGCAATTTCACACACTCTCTGTAC----

upper sequence: LOC_Os07g26740.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA15G05670.1 (Glycine max), 3'ss of exon 3
gtctttatcaatgctttcagcttctttttttttttcctcctcatcatgttatagcattcggttttttagaagcatctgacccgtcttgttgcaatctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCTGATATTGCCCTGTTCCCCAATTCTCTGCCAGGAG
   ||  |  |||        |   |  ||||||   |||   |  |||  | ||    |||| ||    ||   |||  |  | ||||             |||||||||||||||||||| || ||||| |||||||||||||||||||| |||||||||||   ||   ||   |   |    |   ||  |    ||    
--gttagtatatggaaagcaatggatgcttttttggttccatgtggtgt-gtggctaatggttgtt----agttcctg-tctatgttgtg------------cagAGGTGCAAGCACTTTGAGATTGGTGGTGACAAGAAGGGCAAGGGAACATCACTCTTCTAGTTTGAGAATTAGGATTTAGAGCTTTATGTTTCAGCAATGT

upper sequence: LOC_Os07g26740.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA15G05670.2 (Glycine max), 3'ss of exon 3
gtctttatcaatgctttcagcttctttttttttttcctcctcatcatgttatagcattcggttttttagaagcatctgacccgtcttgttgcaatctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCTGATATTGCCCTGTTCCCCAATTCTCTGCCAGGAG
   | |||  |        | | |||||||  || | |     |  |||  | ||    |||| ||    ||   |||  |  | ||||             |||||||||||||||||||| || ||||| |||||||||||||||||||| |||||||||||   ||   ||   |   |    |   ||  |    ||    
--gtatatggaaagcaatggatgcttttttggttccat----gtggtgt-gtggctaatggttgtt----agttcctg-tctatgttgtg------------cagAGGTGCAAGCACTTTGAGATTGGTGGTGACAAGAAGGGCAAGGGAACATCACTCTTCTAGTTTGAGAATTAGGATTTAGAGCTTTATGTTTCAGCAATGT

upper sequence: LOC_Os07g26740.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA08G19320.1 (Glycine max), 3'ss of exon 3
gtctttat-caatgctttcagcttctttttttttttcctcctcatcatgttatagcattcggttttttagaagcatctgacccgtcttgttgcaatctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCTGATATTGCCCTGTTCCCCAATTCTCTGCCAGGAG-
||   |||    |      | |     |||    |   |  |   ||||   |    |  || |  |     |   |||  |  | ||||||           |||||||||||||||||||| || ||||| |||||||||||||||||||| || || |||||   |||  ||   |    |   |    || | |  ||| |  
gttagtatatggtaaacaaaacaatggtttaaagtggttgtttggcatg---tgctgtgtggctaatggtttgttcctg-tctatgttgttgtg---------cagAGGTGCAAGCACTTTGAGATTGGTGGTGACAAGAAGGGCAAGGGAACATCTCTGTTCTAGTTTGCGAATTAGGATTCGCAGCTTT-TTATGTTTCAGCAAT

upper sequence: LOC_Os07g26740.1 (Oryza sativa), 3'ss of exon 3
lower sequence: AT3G23390.1 (Arabidopsis thaliana), 3'ss of exon 3
gtctttatcaatgctttcagcttctttttttttttcctcctcatcatgttatagcattcggttttttagaagcatctgacccgtcttgttgcaatctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCTGATATTGCCCTGTTCCCCAATTCTCTGCCAGGAG
           ||| |  | | |   |   ||  |  | |      ||| |      | |||  |||     ||| ||    |  ||||||     | | |||||||||||||||| || || |||||||| ||||||||||| |||||||| || || || |||| || |   ||     | |   | | || | | |  |  |
----------gtgcatagaacatagatcagttcattataccggatttgtaac-----ttggtaatttgcttacat-tgtgttggtttgttg----tttatttcagAGGTGCAAGCATTTCGAGATCGGTGGTGACAAGAAGGGAAAGGGAACATCTCTGTTTTAAGTTGGTTTCATCTTATTTTCTGCGATTTTTGTACTTGCTG

upper sequence: LOC_Os07g26740.1 (Oryza sativa), 3'ss of exon 3
lower sequence: AT4G14320.1 (Arabidopsis thaliana), 3'ss of exon 3
gtctttatcaatgctttcagcttctttttttttttcctcctcatcatgttatagcattcggttttttagaagcatctgacccgtcttgttgcaatctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCTGAT--ATTGCCCTGTTCCCCAATTCTCTGCCAGGAG
         ||||  | |  | |  |||   |||      | ||||   | |||   || ||| |      |  ||| || | |  ||| |   | |   | |||||||||||||||||||| |||||||||||||||||||| |||||||| || ||||| |||| || || |  ||    ||  |      |  | ||   ||  
-------gtaatgtctgcgacattctttaccttt----gttaatcactctttagt-ctcagttct------gtttcttacactttgtgt-gtggttt--ttgcagAGGTGCAAGCACTTTGAGATCGGTGGAGACAAGAAGGGAAAGGGAACATCTCTCTTTTAAGTTGTTGTTTCATCTATCTACTTTTTTTTGTTTTGTTTGG--

upper sequence: LOC_Os07g26740.1 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv13s0064g00880.t01 (Vitis vinifera), 3'ss of exon 3
gtctttatcaatgctttcagcttctttttttttttcctcctcatcatgttatagcattcggttttttagaagcatctgacccgtcttgttgcaatctgactt--cagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCTGATATTGCCCTGTTCCCCAATTCTCTGCCAGGAG-
|||    ||    | |  |||| |  |||| ||||||| |   |  ||||| | |  |   ||||  | ||       |    | ||||||||||  |  ||  |||||||||||||| ||||| || || || ||||||||||| ||||||||||| ||||| || || ||  |  | | | | |||  |  | || |   | |   
gtcagagtcttaacctcaagctacacttttcttttcctgccttttgtgttacaccccttacttttacacaa---ctgaatttttgttgttgcaattgggttttgcagAGGTGCAAGCATTTTGAGATTGGAGGGGACAAGAAGGGGAAGGGAACTTCTCTCTTTTAGGAGGCAAACTTGGTCATTTTCGTCT-TGCTATATTATGTTG

upper sequence: LOC_Os07g26740.1 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv01s0011g02080.t01 (Vitis vinifera), 3'ss of exon 4
gtctttatcaatgctttcagcttctttttttttttcctcctcatcatgttatagcattcggt-----tttttagaagcatctga-cccgtcttgttgcaatctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCTGATATTGCCCTGTTCCCCAATTC-TCTGCCAGGAG
         ||   ||      | | ||||||       |  ||  ||  |  |  ||   |     |||  | | | | || | |   | |  ||| | | ||    |||||||||||||||||||| |||||||| || |||||||| ||||| ||||| || || ||   |||  | |     |  || |    | | ||| |||    
-------caaaaatttgtcaaatgtattttttaagttagcaaattttgaaactgtttttaataactgtttccaaatgaacctcagcttctgtcattggattttg----cagAGGTGCAAGCACTTTGAGATCGGTGGCGATAAGAAGGGGAAGGGCACTTCTCTATTTTAGATTGC-AAAACCAGGCAATTGCAGGGTCCATCTTCCATTTT

upper sequence: LOC_Os07g26740.1 (Oryza sativa), 3'ss of exon 3
lower sequence: PP1S6_198V6.1 (Physcomitrella patens), 3'ss of exon 4
---------------------------------------------------------------------------------gtctttatcaatgctttcagcttctttttttttttcctcctcatcatgttatag--cattcggttttttagaa-gcatctgaccc------gtcttgt-tgcaatctga----cttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCT-GAT---ATTGCCCTGTTCCCCAATTCTCTGCCAGGAG
                                                                                    | || | || || ||   | | | |||| |    || | ||||| |    |  ||     |   |  ||| | | |  ||        ||||        |  ||     || ||| | |||||||||||||| || || |||||||||||||| ||||| |||   |||||||| |   || |||   ||| ||  | | |  || | |  |  ||   
gtaattcaatctattttcttgctggtagttgattggtttgacaaatattcatgtggaattttgcaacggaattgtcattgtaggtgtaaccattctctcctgtccgtattttctgaaatctttatcatttcgccgatcaaataatcactaggaacgtaccccacttcaaagagtctaacacatgacttggtactctgcagCGATGCAAGCACTTTGAGATTGGAGGAGACAAGAAGGGTAAGGGCACTCAGCTCTTCTAGGCAACTCGATTGGATTACCTCGCTTCTGAACTTTA-GAGAG---

upper sequence: LOC_Os07g26740.1 (Oryza sativa), 3'ss of exon 3
lower sequence: PP1S74_73V6.1 (Physcomitrella patens), 3'ss of exon 4
gtctttatcaatgctttcagcttctttttttttttcctcctcatcatgttatagcattcggttttttagaagcatctgacccgtcttgttgcaatctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCTGATATTGCCCTGTTCCCCAATTCTCTGCCAGGAG
 |  ||     |||      | || |  | ||||     ||   | |  |  | || ||       |  | |   || || |     ||   | | ||    ||| | ||||||||||| || || || |||||||||||||||||||| ||   ||| || |||  | |   | ||            ||   | ||    |  
-tggtttcgcgtgcggaagccctcatagtgttttagtctctttgcttacttgaacaatcctcaggcttcaggtgactaacactcaaagtgatattttg----cagCGCTGCAAGCACTTCGAGATTGGAGGAGACAAGAAGGGCAAGGGTACCCAACTTTTTTAAACTACATGTCTTAATTGAAATGTTAAAATTGTGGACTGGT

upper sequence: LOC_Os07g26740.1 (Oryza sativa), 3'ss of exon 3
lower sequence: PP1S22_326V6.1 (Physcomitrella patens), 3'ss of exon 4
-------------gtctttatcaatgctttcagctt--ctttttttttttcctcctcatcatgttatagcattcggttttttagaagcatctgacccgtcttgttgcaatctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCTGATATTGCCCTGTTCCCCAATTCTC-TGCCAGGAG
               || | |     || | || |   |  |  | | |   || | |  |  | ||    ||  ||| || |   |  |   |   || ||  |  ||| | |   ||| | ||||||||||| || ||||| |||||||||||||||||||||||   ||||||||| ||   || | ||    ||||| ||  ||    |||    ||
gtaattagtcctttactctgtgcgcactatgaggtaaacactggtgtgtatgtcattaatacataatgatgttttgttgttcattcgtgtaacatgtgtgttcgtttaatttta---cagCGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAACTCTTCTA-GACAGTGTTGTTAGAATGTTCTCCTTTTAGAATGCGGAAAG

upper sequence: LOC_Os07g26740.1 (Oryza sativa), 3'ss of exon 3
lower sequence: EFJ05955 (Selaginella moellendorffii), 3'ss of exon 4
gtctttatcaatgctttcagcttctttttttttttcctcctcatcatgttatagcattcggttttttagaagcatctgacccgtcttgttgcaatctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCTGATATTGCCCTGTTCCCCAATTCTCTGCCAGGAG-
                                                   | | |||    | |||    |   |||| |  |   | |    |   | | ||||||||||| ||||||||||||||||| ||||||||||||||||||||     | |||||||  ||      | |  | |||| |  ||   |   | |   
--------------------------------------------------gtgggatttttctctttgctcgtccctgatcgatg--gctttcttgcaaatccagAGGTGCAAACACTTTGAAATCGGTGGTGACAAGAAGGGCAAGGGAACGAGCTTGTTCTAAG-CGCGCGCGATTCAATTTTCCTCTCTTGGATATGATGTTC

upper sequence: LOC_Os07g26740.1 (Oryza sativa), 3'ss of exon 3
lower sequence: EFJ07113 (Selaginella moellendorffii), 3'ss of exon 4
gtctttatcaatgctttcagcttctttttttttttcctcctcatcatgttatagcattcggttttttagaagcatctgacccgtcttgttgcaatctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCTGATATTGCCCTGTTCCCCAATTCTCTGCCAGGAG-
                                                   | | |||    | |||    |   |||| |  |   | |    |   | | ||||||||||| ||||||||||||||||| ||||||||||||||||||||     | |||||||  ||      | |  | |||| |  ||   ||        
--------------------------------------------------gtgggatttttctctttgctcgtccctgatcgatg--gctttcttgcaaatccagAGGTGCAAACACTTTGAAATCGGTGGTGACAAGAAGGGCAAGGGAACGAGCTTGTTCTAAG-CGCGCGCGATTCAATTTTCCTCTCTTGGATGATGTTCTC

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|58599599|gb|CK010127.1|CK010127
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88330761|gb|CI636769.1|CI636769
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88742622|gb|CI766130.1|CI766130
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88906166|gb|CI375238.1|CI375238
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|5701709|gb|D22616.2|D22616
EST:     CAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCNAGCACTTTGAAANCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: CAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88505133|gb|CI432639.1|CI432639
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88310008|gb|CI657432.1|CI657432
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88575814|gb|CI669959.1|CI669959
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88266083|gb|CI376985.1|CI376985
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|2311208|gb|C27363.1|C27363
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAG-ACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88330344|gb|CI633550.1|CI633550
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACT
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACT
EST: gi|88336818|gb|CI644245.1|CI644245
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88349588|gb|CI653867.1|CI653867
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|425966|gb|D22649.1|D22649
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCAC
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCAC
EST: gi|27576163|gb|CA998857.1|CA998857
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88488152|gb|CI425423.1|CI425423
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88479294|gb|CI416565.1|CI416565
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88575707|gb|CI669852.1|CI669852
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88282277|gb|CI403673.1|CI403673
EST:     CAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: CAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88423189|gb|CI613490.1|CI613490
EST:     TGAAGCTGGAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACCAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88490932|gb|CI428204.1|CI428204
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88427254|gb|CI586802.1|CI586802
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88469941|gb|CI407212.1|CI407212
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88662682|gb|CI472142.1|CI472142
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAAGGTTC
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAAC-TTC
EST: gi|88445923|gb|CI549646.1|CI549646
EST:     AGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: AGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|286577|gb|D15384.1|D15384
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGA-CTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88479759|gb|CI417030.1|CI417030
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88512222|gb|CI439728.1|CI439728
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88963096|gb|CI026770.1|CI026770
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88332629|gb|CI651789.1|CI651789
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88512855|gb|CI440361.1|CI440361
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88364533|gb|CI644611.1|CI644611
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88519979|gb|CI447548.1|CI447548
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88519767|gb|CI447421.1|CI447421
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88382288|gb|CI633146.1|CI633146
EST:     GAACCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: GAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGC-ACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|88281752|gb|CI403148.1|CI403148
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
EST: gi|87012754|gb|CI295198.1|CI295198
EST:     TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAG                         AGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA
genomic: TGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCA

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), 62 (downstream exon)
Score: 33

GCCAAGACAACAAAGAAGATCGTTCTGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCTCAGCACCCGATCAAGgtctttatca ... ctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCTGATATTGCCCTGTTCCCCAATTCTCTGCCAGGAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atagcattcggttttttagaagcatctgacccgtcttgttgcaatctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCTGATATTGCCCTGTTCCCCAATTCTCTGCCAGGAG
                                           atctgac  putative branch site (score: 33)
           ttttttagaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctttatcaatgctttcagcttctttttttttttcctcctcatcatgttatagcattcggttttttagaagcatctgacccgtcttgttgcaatctgacttcagAGGTGCAAGCACTTTGAAATCGGTGGAGACAAGAAGGGCAAGGGAACTTCACTCTTCTAAGATGCTGATATTGCCCTGTTCCCCAATTCTCTGCCAGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT