Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgccaccttgaatctcacttgttctgcttttactgtgtcaattggtaccttacagtcttggtgtttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT

Basic information

species Oryza sativa
transcript LOC_Os04g51630.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g51630.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G094051_T05 (Zea mays), 3'ss of exon 5
--------gtttgccaccttgaatctcact----tgttctgcttttactgtgtcaatt-----ggtaccttacag-tcttggtgtttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT
          |||  ||  |  ||||   |    ||||||| || || | || |||||     | |    | ||  | ||||||||  |||||||| ||||| |||||  |||||||||||||||||||||||||||| ||||||||||||||||||||||| ||||||||||||||||||||||| |||||||
gtttgtaaacttggaactctacatctggttcctgtgttctgtttata-tatgacaatttacatgatgatctccaccttttggtgttc-tatcagGGCTTGGGCAAGCACAACATCATCTGCATTGAGGATCTTGTTCACGAGATCATGACTGTTGGCCCACACTTCAAGGAGGCCAACAACTTCCTGTGGCCAT

upper sequence: LOC_Os04g51630.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G344279_T01 (Zea mays), 3'ss of exon 6
--------------------------gtttgccaccttgaatct-cacttgttctgcttttactgtgtcaattggtaccttacagtcttggtgtttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT
                          | || |    ||   | |  | |||||    ||| ||  | | |  || |    | ||   || ||  || |||||||| ||||  |||||  | ||||||||| | |||||||||||||| ||||||||||||||||||||||| ||||||||||| ||||||||||| |||||||
gtttgtaaacttggaactgtacatctggttcctgtgttctgtttatatttgtttatatttgacaat-ttacatgatgatctccaccttttgttgttctatcagGGCTTGGACAAGCAAAAAATCATCTGCGTCGAGGATCTTGTTCACGAGATCATGACTGTTGGCCCACACTTCAAGGAGGCGAACAACTTCCTGTGGCCAT

upper sequence: LOC_Os04g51630.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM5G868433_T02 (Zea mays), 3'ss of exon 6
--------------gtttgccaccttgaatctcacttgttctgcttttactgtgtcaatt-----ggtaccttacagt-cttggtgtttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT
              | |   ||||| | |||     || ||||||| || | || |||||     | |    | ||    ||||||||  |||||||| ||||| |||||  ||||||| ||||||||||||||||||||||||||||||||||| |||||||| ||||||||||| ||||||||||| |||||||
gtttgcaatcttgagctctgcacct-ggatcctttgtgatctgcttgtatt-tgacaatttacatgatgatctccaccatttggtgttc-tatcagGGCTTGGGCAAGCACAACATCATTTGCATTGAGGATCTTGTTCATGAGATCATGACTGTCGGCCCACACTTCAAGGAGGCGAACAACTTCCTTTGGCCAT

upper sequence: LOC_Os04g51630.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GLYMA09G06860.1 (Glycine max), 3'ss of exon 6
-----------------gtttgccaccttgaatctcacttgttctgcttttactgtgtcaattggtacctt-acagtcttggtgtttg-tatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT
                 | | | || ||| ||         ||     |||  | | | | |  ||   ||  | | | |    ||   |  |||  |||||| |||||||  ||||| ||| |||| |||||  | ||||||||  |||||||||| || |||||||||||||||||||| || || ||||| |
gtctgtctggtgtaccggctagtcatctttaaatatctccattgcttgtttgttctattactcagttttttcgctgacataacattcaatgccagACTTTGGGGAAGCATGGGATCATTTGCGTTGAAGATCTGATCCATGAGATATTGACTGTTGGACCTCATTTCAAGGAGGCCAACAATTTTCTGTGGCCTT

upper sequence: LOC_Os04g51630.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GLYMA07G02270.1 (Glycine max), 3'ss of exon 6
--gtttgccaccttgaatctcacttgttctgcttttactgtgtcaattggtaccttacagtcttggtgtttgtat--cagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT
   ||    |  ||  |  ||     | | | |||||     | |||| |   | | |    |   || ||| ||  |||| | |||| ||| |||  ||||| | || ||| |||||  | ||||||||||| |||||||| || || || |||||||| ||||||||||| |||||||
gtattgtttattttacaattcttccttacagatttta----attaattcgctacatgcttcttacttgcttggatgacagGCTCTGGGCAAGTATGGAATCATATCCACTGAAGATCTGATCCATGAGATCATCACTGTTGGACCTCACTTTAAGGAGGCTAACAACTTCCTTTGGCCAT

upper sequence: LOC_Os04g51630.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GLYMA15G18170.1 (Glycine max), 3'ss of exon 6
-----------------gtttgccaccttgaatctcacttgttctgcttttactgtgtcaattggtaccttacagt--cttggtgtttg-tatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT
                   | | |  ||  || | |     ||     |||  | | | | || ||   || |  |  | |    ||   |  |||  |||||| |||||||  ||||| ||| |||| |||||  | |||||||||||||||||||| || || ||||||||||||||||| || || ||||| |
gtccgtgtggtctattctgtagtcctctgtaaacacttccattgcttgtttgttctattacttagtttttttccctgacataacattcaatgccagACTTTGGGGAAGCATGGGATCATTTGCGTTGAAGATCTGATCCATGAGATCATGACTGTTGGACCTCACTTCAAGGAGGCCAACAATTTTCTGTGGCCTT

upper sequence: LOC_Os04g51630.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GLYMA08G23750.2 (Glycine max), 3'ss of exon 6
gt-ttgccaccttgaatctcacttgttctgcttttactgtgtcaattggtaccttacagtcttggtgtttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT
|| |||  |  ||  |  ||  |  | |   ||| | |   |  | |   |   | | | |||| | |   |  ||||   |||| ||  |||  ||||| | || ||| |||||  | ||||||||||| |||||||| || || || |||||||| ||||||||||| |||||||
gtattgttaatttacaattctgtattacaaatttgaattaattcacta-catgcttctgacttgct-tggatgacagGCGCTGGGCAAATATGGAATCATTTCCACTGAAGATCTGATCCATGAGATCATCACTGTTGGGCCTCACTTTAAGGAGGCTAACAACTTCCTTTGGCCAT

upper sequence: LOC_Os04g51630.2 (Oryza sativa), 3'ss of exon 6
lower sequence: AT2G01250.1 (Arabidopsis thaliana), 3'ss of exon 6
-------gtttgccaccttgaa--tctcacttgttctgcttt-tactg-tgtcaa-ttggtaccttacagtcttggtgtttgta-----------tcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT
        | || | |  ||    |||  ||| ||  | ||| | ||| | |||| ||     || ||    |     |   ||           ||||| | | || |||||||  ||||| |||| ||||||| |  | || |||||  | || || || || ||||||||||| |||||||||||||| |||||||
gtttgagatctgtctctctgtggctcttgcttctttagttttgttctgatatcaagtttaagactcacgaattcttcttccatacaaaaccaaaatcagGCTCTTGGAAAGCATGGTATCATTTGCACTGAGGATTTGATCCACGAGATTCTAACAGTAGGACCTCATTTCAAGGAAGCCAACAACTTCCTTTGGCCAT

upper sequence: LOC_Os04g51630.2 (Oryza sativa), 3'ss of exon 6
lower sequence: AT2G01250.2 (Arabidopsis thaliana), 3'ss of exon 6
-------gtttgccaccttgaa--tctcacttgttctgcttt-tactg-tgtcaa-ttggtaccttacagtcttggtgtttgta-----------tcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT-------------------------------------------------------------------------------
        | || | |  ||    |||  ||| ||  | ||| | ||| | |||| ||     || ||    |     |   ||           ||||| | | || |||||||  ||||| |||| ||||||| |  | || |||||  | || || || || ||||||||||| |||||||||||||| |||||||                                                                               
gtttgagatctgtctctctgtggctcttgcttctttagttttgttctgatatcaagtttaagactcacgaattcttcttccatacaaaaccaaaatcaggctcttggaaagcatggtatcatttgcactgaggatttgatccacgagattctaacagtaggacctcatttcaaggaagCCAACAACTTCCTTTGGCCATTCCAGCTTAAGGCACCACTAGGTGGCCTCAAGAAGAAGAGAAATCACTACGTGGAAGGTGGTGATGCCGGAAACCGTGA

upper sequence: LOC_Os04g51630.2 (Oryza sativa), 3'ss of exon 6
lower sequence: AT3G13580.2 (Arabidopsis thaliana), 3'ss of exon 6
-----------------------------------------------------------------------------------------------------------------------gtttgcca--ccttgaatctcacttgttctgcttttactgtgtcaattg-gtacct-tacagtcttggtgtttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT
                                                                                                                       || |  ||    | || | ||| || |  |       || ||||   |   ||  |  | |  ||| |   ||| |||||||  | || ||||||| |||||||||| ||||||||||  | |||||||||||||| ||||| |||||||||||||| ||||| |||||  | |||||||
gtgcatatcatcaacctatctccttcatcaagtctggttcagttcctaaagtcaatattattgccgttatccctgtcctagaaaaaatgatgtattatcatcaatgttggattcaatttgtctaacagatatggattgtcatttatcatcaaaactctatgtcttctctatatttacatatcctttgctgttgaatcagGGGCTAGGAAAGCATGGCATCATCTGCGTTGAGGATCTGATCCATGAGATCATGACGGTTGGGCCACATTTCAAGGAAGCCAATAACTTTTTGTGGCCAT

upper sequence: LOC_Os04g51630.2 (Oryza sativa), 3'ss of exon 6
lower sequence: Vv09s0054g00010.t01 (Vitis vinifera), 3'ss of exon 5
----gtttgccaccttgaatctcacttgttctgcttttactgtgtcaattggtaccttacagtcttggtgtttgtat--cagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT
     | || ||   || ||||   || |         | ||| |    |      || |   | || | ||   ||   ||| |||||| |||  ||  || || ||||| || |||||| |||||||||||||||||||||| || ||||| |||||||||||||||||||| |||||||
gtttttatgtcattctgtatcttggttttctatgagcgattgtttgctatatcttgttgctaacctgcttttgtgatgatagGCTTTGGGGAAGTTTGGTATTATTTGCATGGAAGATCTTATTCATGAGATCATGACTGTTGGACCTCATTTTAAGGAGGCCAACAACTTCCTATGGCCAT

upper sequence: LOC_Os04g51630.2 (Oryza sativa), 3'ss of exon 6
lower sequence: Vv09s0054g00140.t01 (Vitis vinifera), 3'ss of exon 4
----gtttgccaccttgaatctcacttgttctgcttttactgtgtcaattggtaccttacagtcttggtgtttgtat--cagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT
     | || ||   || ||||   || |         | ||| |   ||      || |   | || | ||   ||   ||| |||||| |||  ||  || || ||||| || |||||| |||||||||||||||||||||| || ||||| |||||||||||||||||||| |||||||
gtttttatgtcattctgtatcttggttttctatgagcgattgtttgctttatcttgttgctaacctgcttttgtgatgatagGCTTTGGGGAAGTTTGGTATTATTTGCATGGAAGATCTTATTCATGAGATCATGACTGTTGGACCTCATTTTAAGGAGGCCAACAACTTCCTATGGCCAT

upper sequence: LOC_Os04g51630.2 (Oryza sativa), 3'ss of exon 6
lower sequence: Vv09s0054g00090.t01 (Vitis vinifera), 3'ss of exon 4
-gtttgccaccttgaatctcacttgttctgcttttactgtgtcaattggtaccttacagtcttggtgtttgtat--cagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT
  |||     | || ||||   || || |      | ||| |    |      || |   | || | ||   ||   ||| |||||| |||  ||  || || ||||| || |||||| ||||||| |||||||||||||| || ||||| |||||||||||||||||||| || ||||
gtttttatgtcctgtatcttggttttttttgagggattgtttgctatatcttgttgctaacctgcttttgtgatgatagGCTTTGGGGAAGTTTGGGATTATTTGCATGGAAGATCTTATTCATGAAATCATGACTGTTGGACCTCATTTTAAGGAGGCCAACAACTTCCTATGACCAT

upper sequence: LOC_Os04g51630.2 (Oryza sativa), 3'ss of exon 6
lower sequence: Vv11s0052g00290.t01 (Vitis vinifera), 3'ss of exon 6
gtttgccacc--ttgaatctcacttgt---tctgcttttactgtgtcaattggtaccttacag---tcttggtgt-ttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT
|||||       || |||  || || |   |  | | |     | | || |||    | |  |   | ||||| | || |  |||| |||||| |||  ||  ||||| |||||||| |||||  | |||||||| ||||||||||| ||||| ||||||||||| ||||||||||| |||||||
gtttgttgtaggttaaataacatttatatgttcgatgtattgctataaactggcttttcaatgacattttggtatgttattgcagGCTTTGGGCAAGTTTGGAATCATTTGCATTGAAGATCTCATCCATGAGATTATGACTGTTGGGCCACACTTCAAGGAGGCAAACAACTTCCTGTGGCCAT

upper sequence: LOC_Os04g51630.2 (Oryza sativa), 3'ss of exon 6
lower sequence: PP1S2_667V6.2 (Physcomitrella patens), 3'ss of exon 4
-----------------------gtttgccaccttgaatctcacttgttctgcttttactgtgtcaattggtaccttac-agtcttggtgtttgtat-cagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT
                              |   | | |   || ||   ||  |    ||     |||   |||| |  | |  || || || | |  |||   | || |||   |  ||||| || |||||||||||  ||||||||||| | |||||||| || || |||||||| |||||||||||  | ||| | |
tcgtataaatagctgcattgcgacacaattaaaattagtaggacctgacgtgtatcctttgcagtgattt-cacctgatgaattctgttgattttgtgtagGCACTTGGAAAGTTGGGTATCATATGTATTGAGGATCTCATTCATGAGATCTTCACTGTTGGACCTCACTTCAAGGAAGCCAACAACTTTTTATGGTCTT

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|2797323|gb|AA750617.1|AA750617
EST:     AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAG                         GGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGA
genomic: AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAGgtttgccacc ... tttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGA
EST: gi|23380534|gb|BU666979.1|BU666979
EST:     AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAG                         GGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
genomic: AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAGgtttgccacc ... tttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
EST: gi|38483035|gb|CF966837.1|CF966837
EST:     AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAG                         GGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
genomic: AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAGgtttgccacc ... tttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
EST: gi|33683621|gb|CF311860.1|CF311860
EST:     AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACANAGTCATCGAGGAG                         GGTTTGGGTAAGCATGACATCATCTGCATTGAGGATC
genomic: AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAGgtttgccacc ... tttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATC
EST: gi|58686835|gb|CK075522.1|CK075522
EST:     AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAG                         GGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
genomic: AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAGgtttgccacc ... tttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
EST: gi|29615310|gb|CB620322.1|CB620322
EST:     AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAG                         GGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
genomic: AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAGgtttgccacc ... tttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
EST: gi|29618049|gb|CB623061.1|CB623061
EST:     AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAG                         GGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
genomic: AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAGgtttgccacc ... tttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
EST: gi|7378457|gb|AU088728.1|AU088728
EST:     AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAG                         GGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
genomic: AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAGgtttgccacc ... tttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
EST: gi|29687687|gb|CB683962.1|CB683962
EST:     AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAG                         GGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
genomic: AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAGgtttgccacc ... tttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
EST: gi|29687177|gb|CB683452.1|CB683452
EST:     AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAG                         GGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
genomic: AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAGgtttgccacc ... tttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
EST: gi|5004133|gb|AU069282.1|AU069282
EST:     AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAG                         GGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
genomic: AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAGgtttgccacc ... tttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
EST: gi|218499248|gb|FG947277.1|FG947277
EST:     AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAG                         GGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
genomic: AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAGgtttgccacc ... tttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
EST: gi|5003988|gb|AU069137.1|AU069137
EST:     ANCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAG                         GGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
genomic: AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAGgtttgccacc ... tttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
EST: gi|218489781|gb|FG969217.1|FG969217
EST:     AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAAGAG                         GGTTTGGGTAAGCATG
genomic: AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAGgtttgccacc ... tttgtatcagGGTTTGGGTAAGCATG
EST: gi|29618047|gb|CB623059.1|CB623059
EST:     AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAG                         GGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
genomic: AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAGgtttgccacc ... tttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
EST: gi|58693620|gb|CK082307.1|CK082307
EST:     AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGACGAG                         GGTTAGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
genomic: AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAGgtttgccacc ... tttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATC
EST: gi|33679130|gb|CF307369.1|CF307369
EST:     AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAG                         GGTTTGGGTAAGCATGACATCATCTGCAT
genomic: AGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAGgtttgccacc ... tttgtatcagGGTTTGGGTAAGCATGACATCATCTGCAT

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), 67 (downstream exon)
Score: 150

CCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAGGAGgtttgccacc ... tttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttctgcttttactgtgtcaattggtaccttacagtcttggtgtttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT
                            accttac  putative branch site (score: 150)
         ttttact  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgccaccttgaatctcacttgttctgcttttactgtgtcaattggtaccttacagtcttggtgtttgtatcagGGTTTGGGTAAGCATGACATCATCTGCATTGAGGATCTTGTTCATGAGATCATGACTGTTGGCCCACATTTCAAGGAGGCCAACAACTTCCTCTGGCCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG