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

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcttttctacaatgtttcaagttctgtcttattggaaacctgcttcgttcttatcaatagtttttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTTGTGATGACCAAGGATGAGTTTTCTGGTGCTGACATCAAAGCAATATGTA

Basic information

species Oryza sativa
transcript LOC_Os03g18690.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g18690.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G104373_T01 (Zea mays), 3'ss of exon 4
gtgcttttctacaatg-----tttcaagttctgtcttattgg-----aaacctgcttcgttcttatcaata----gtttttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTTGTGATGACCAAGGATGAGTTTTCTGGTGCTGACATCAAAGCAATATGTA
|||||| | |   |||     ||   ||| ||||  | ||       || | || || ||| ||| ||| |    |||||   | ||||||||||||||| || |||||| |||| |||||||| ||||||||||||||| | ||| | || ||||||||||| |||||||||||||| || || ||||
gtgcttctatgtgatgaaagcttctgagtcctgttcttttaattaaaaagcatgatttgttgttaccaaaattttgttttgatgagcagATACACACATCGAAAATGACACTGGCTGATGATGTAAACCTAGAAGAGTTTATTATGTCAAAAGATGAGTTTTCAGGTGCTGACATCAAGGCCATTTGTA

upper sequence: LOC_Os03g18690.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA03G32800.1 (Glycine max), 3'ss of exon 4
------------------------------------gtgcttttctacaatgtttcaa---gttctgtcttattggaaacctgcttcgttcttatcaatagtttttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTTGTGATGACCAAGGATGAGTTTTCTGGTGCTGACATCAAAGCAATATGTA
                                     |||||  ||   || | | ||   | |   |||  ||    |  ||  |      | | | || || |    |  ||||||||||||| | ||||||||| || |||||||| ||  ||||||| ||||| ||||||||||||||||| ||||| ||||| || |||||||||||||
gtaggcacattttgtgaaagcaagttttcagtttcactgcttcactgttatatcttaatatgcttattctacttaattatatgactaaaaggtctta-tacttctgaaatttagATACACACATCAAGGATGACATTAGCTGATGATGTCAATTTAGAAGAATTTGTTATGACCAAGGATGAGTTCTCTGGAGCTGATATAAAAGCAATATGTA

upper sequence: LOC_Os03g18690.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA19G35510.1 (Glycine max), 3'ss of exon 4
----------------------------------gtgcttttctacaatgtttcaag--ttctgtcttattggaaacctgcttcgttctta---tcaatagtttttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTTGTGATGACCAAGGATGAGTTTTCTGGTGCTGACATCAAAGCAATATGTA
                                  |   ||  ||   || | | ||   | || |  || |  |    |   ||  |   |      ||| ||||    |  ||||||| || || | ||||||||| || |||||||| ||| ||||||| ||||| ||||| ||||||||||| ||||| ||||| || |||||||||||||
gtcggaatgactagttctgtgaaaacatgtttttggttttcactgacatatcttaatattcctattctactt-agttatatctcactaaaaggtcttatacttttgatatttagATACATACTTCAAGGATGACATTAGCTGATGATGTCAACTTAGAAGAATTTGTTATGACTAAGGATGAGTTCTCTGGAGCTGATATAAAAGCAATATGTA

upper sequence: LOC_Os03g18690.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA10G04920.1 (Glycine max), 3'ss of exon 4
------------------------gtgcttttctacaatgtttcaagttctgt-cttattggaaacctgc-ttcgttcttatcaatagtttttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTTGTGATGACCAAGGATGAGTTTTCTGGTGCTGACATCAAAGCAATATGTA
                         || || | |   || | | ||  |   | |||  |  || | |    |  | | |    |||  ||| |  |  ||||||||||||| | ||||||||| || |||||||| ||| | ||||| ||||| ||||| || ||||| || ||||| ||||| || || ||||||||||
acccaacataagatgttgtttctgctgattctatgtgatatcttaacatgcatactttgttcaatcatatgcttatacattctcata-ctttggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTTGTTATGACTAAAGATGAATTCTCTGGAGCTGATATAAAGGCAATATGTA

upper sequence: LOC_Os03g18690.1 (Oryza sativa), 3'ss of exon 4
lower sequence: AT2G20140.1 (Arabidopsis thaliana), 3'ss of exon 4
------------gtgcttttcta-caatgtttcaagttctgt---cttattggaaa--cctgcttcgttcttatcaatagtttttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTTGTGATGACCAAGGATGAGTTTTCTGGTGCTGACATCAAAGCAATATGTA
            ||| |  |  |    | ||||   || |||    ||  | ||||   ||| |  ||| |||     |     |   |  ||||||||||||| |||||||| ||||| || ||||| ||| ||||||||||||| ||||| || || ||||| || || ||||| || || |||||||| |
gttccacaactggtgatccttaagttttctttctttttttgtgaattttctagaaagatctgatcggtttttaattgcatgccattatt--agATACACACATCAAAGATGACTTTGGCTGAAGATGTGAACTTAGAAGAGTTTGTAATGACAAAAGACGAGTTCTCAGGAGCTGATATAAAGGCAATATGCA

upper sequence: LOC_Os03g18690.1 (Oryza sativa), 3'ss of exon 4
lower sequence: AT4G29040.1 (Arabidopsis thaliana), 3'ss of exon 4
-----gtgcttttctac-aatgtttcaagttc-tgtcttattggaaacctgcttcgttcttatca--atagtttttgggtgca-----gATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTTGTGATGACCAAGGATGAGTTTTCTGGTGCTGACATCAAAGCAATATGTA
      |    ||||||  |  |  ||| |   || ||| || ||||| | |||  |  ||       | | || ||  |  |     |||||||||||| ||||||||  |  | || ||||| ||||| ||||||||||||||||| || || ||||| || || ||||| || || || ||||| |
gtaatatataattctactgagatggcaaatcaatgacttgttcgaaactttcttgttcattgaggttgtgggttctgtttataaaatagATACACACATCGAAGATGACTCTCTCGGAAGATGTAAACCTCGAAGAGTTTGTGATGACGAAAGACGAGTTCTCAGGAGCTGATATAAAGGCTATATGCA

upper sequence: LOC_Os03g18690.1 (Oryza sativa), 3'ss of exon 4
lower sequence: Vv07s0005g05160.t01 (Vitis vinifera), 3'ss of exon 4
----------------------------------------gtgcttttctacaatgtttcaagtt--ctgtcttattggaaacctgcttcgttcttatcaatagt-------------ttttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTTGTGATGACCAAGGATGAGTTTTCTGGTGCTGACATCAAAGCAATATGTA
                                         |  |||  | | |  | |   |    |||  | |    || |  ||||  ||  ||| | ||               |||    |||||||||| ||||| | |||||||||||| |||||||||||| | ||||| ||||| ||||| ||||||||||||||||| ||||| || || |||||||| |
gtacatgtgtgtttaagattatgcaaatgcaatattcactatattttcatccgacttcttgtgacaactgaatcacca-aacctggcttgattactattactaagcaaatctcatttatttaaattgcagATACATACATCAAGGATGACATTGGCTGATGATGTTAACTTGGAAGAATTTGTTATGACTAAGGATGAGTTTTCTGGAGCTGATATAAAGGCAATATGCA

upper sequence: LOC_Os03g18690.1 (Oryza sativa), 3'ss of exon 4
lower sequence: PP1S12_207V6.1 (Physcomitrella patens), 3'ss of exon 3
---------------gtgcttttctacaatgtttcaa-gttctgtcttat---tggaaacct--gcttcgttcttatcaat--agttttt--gggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTTGTGATGACCAAGGATGAGTTTTCTGGTGCTGACATCAAAGCAATATGTA
                 ||| |||||   | ||  ||  |  || |||||   |  | | ||  | ||  ||| | |   |   ||| ||  | |||||||| || || ||||  |||||  |||| |||||||| ||||| || || || || |||||||||||||| ||||||||||||||||| ||||| || || |
tgtgaggaagaagcatagctattctaacctcttcaaacatagtgacttatgactaaagatctaggtttttttcctctttttttggttattatgtgtgcagATTCATACTTCTAGAATGACTATGGCTGATGATGTAAACCTGGAGGAATTCGTAATGACCAAGGATGAATTTTCTGGTGCTGACATTAAAGCCATTTGCA

upper sequence: LOC_Os03g18690.1 (Oryza sativa), 3'ss of exon 4
lower sequence: PP1S109_234V6.1 (Physcomitrella patens), 3'ss of exon 3
----------gtgcttttctacaatgtttcaagttctgtcttattggaaacctgcttcgttcttatcaatagtttttgggt---------------gcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTTGTGATGACCAAGGATGAGTTTTCTGGTGCTGACATCAAAGCAATATGTA
           |   | | |   | |||  |  ||  || || |||  || |    |  || | |||  | ||||| |  |               |||||| || || ||||  |||||  |||| |||||||| |||||||| ||||||||||||||||| ||||||||||||||||||||||| ||||| || ||||
tcttcattagctttatgtgtgagaagttggagattgagttttcttgataaacgaaattcttttgatcgcttgttttggtttcttttaatgatctctgcagATTCATACTTCTAGAATGACTATGGCTGATGATGTAAACCTAGAGGAGTTTGTGATGACCAAAGATGAGTTTTCTGGTGCTGACATTAAAGCTATCTGTA

upper sequence: LOC_Os03g18690.1 (Oryza sativa), 3'ss of exon 4
lower sequence: PP1S4_277V6.1 (Physcomitrella patens), 3'ss of exon 4
------------------------------------gtgcttttctacaatgt---ttcaagttctgtcttattggaaacctgcttcgt---tcttatcaatagtttttgg---------------gtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTTGTGATGACCAAGGATGAGTTTTCTGGTGCTGACATCAAAGCAATATGTA
                                    ||  ||   |    | |   |||| | |    |||||||  | | | |   ||   | || | || | | ||| |               ||||||||||| || ||||  |||||| |||| |||||||| ||| | || || || ||||||||||||||||| || |||||||||||||| ||||| || || |
gtgatatttcgataacctatgatttgtggtcgaagcgtaattgcttgaggtatacattcatgatgaaccttattgacacctttcccagtaggttttgttaagactgttttgttatgatcttgatctgtgcagATACATACTTCTAGAATGACAATGGCTGATGATGTCAACTTGGAGGAATTCGTGATGACCAAGGATGAATTCTCTGGTGCTGACATTAAAGCTATCTGCA

upper sequence: LOC_Os03g18690.1 (Oryza sativa), 3'ss of exon 4
lower sequence: EFJ20767 (Selaginella moellendorffii), 3'ss of exon 4
gtgcttttctacaatgtttcaagttctgtcttattggaaacctgcttcgttcttatcaatagtttttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTTGTGATGACCAAGGATGAGTTTTCTGGTGCTGACATCAAAGCAATATGTA
               ||  |  ||| | | |  |||    | |   |  ||| || | |   ||  |   ||||||| || ||||| |  |||||| |  | || ||||| ||| | ||||||||||||||||| ||||| || |||||||| ||||||||||| ||||| || |
---------------gtgacgtgttttttttctttgtgcgcgtttgtttttcctaaccact-ttggttcttgcagATCCATACATCGAGAATGACACTCTCTGACGATGTGAACTTTGAAGAGTTTGTGATGACGAAGGACGAATTTTCTGGAGCTGACATCAAGGCAATGTGCA

upper sequence: LOC_Os03g18690.1 (Oryza sativa), 3'ss of exon 4
lower sequence: EFJ32659 (Selaginella moellendorffii), 3'ss of exon 4
gtgcttttctacaatgtttcaagttctgtcttattggaaacctgc-ttcgttcttatcaatagtttttggg--tgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTTGTGATGACCAAGGATGAGTTTTCTGGTGCTGACATCAAAGCAATATGTA
                  | | ||  || ||||||        || || ||| ||  |||    ||| |    ||||||| || ||||| |  |||||| |  | || ||||| ||| | ||||||||||||||||| |||||||| || ||||| ||||||||||| ||||| || |
-----------------gtgacgtcgtg-cttattttttgtgcgcgtttgtttttcccaaccactttggttcttgcagATCCATACATCGAGAATGACACTCTCTGACGATGTGAACTTTGAAGAGTTTGTGATGACGAAGGATGAATTCTCTGGAGCTGACATCAAGGCAATGTGCA

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|300216031|gb|HO088657.1|HO088657
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|89185028|gb|CI049574.1|CI049574
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|8956100|gb|BE229904.1|BE229904
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|218480558|gb|FG955804.1|FG955804
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|86432976|gb|CI093319.1|CI093319
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|87021376|gb|CI295435.1|CI295435
EST:     AGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|58595794|gb|CK006322.1|CK006322
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|86417508|gb|CI031717.1|CI031717
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|2427516|gb|C71979.1|C71979
EST:     AGATTGANTTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|2442891|gb|C74662.1|C74662
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|109974616|gb|DT807006.1|DT807006
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAAATGACATTGGCAGATGATGTGAACCT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCT
EST: gi|89180494|gb|CI044773.1|CI044773
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|87028005|gb|CI276361.1|CI276361
EST:     GATGTGAATTTCCGTTACCAGATATTGAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCCTAGAAGAGTT
genomic: GAT-TGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAA-CCTAGAAGAGTT
EST: gi|58680306|gb|CK068993.1|CK068993
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTA
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTA
EST: gi|89166353|gb|CI103443.1|CI103443
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|29675946|gb|CB672221.1|CB672221
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|86485228|gb|CI127861.1|CI127861
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGCCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|89164297|gb|CI101385.1|CI101385
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|89173969|gb|CI041862.1|CI041862
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|29685470|gb|CB681745.1|CB681745
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|86433617|gb|CI093960.1|CI093960
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|88957058|gb|CI095102.1|CI095102
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|218489498|gb|FG958296.1|FG958296
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|8857474|gb|AU094792.1|AU094792
EST:     AGATTGAATTTCCGTTACCAGATNTTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|86415212|gb|CI069615.1|CI069615
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|89193341|gb|CI050639.1|CI050639
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|86434829|gb|CI106062.1|CI106062
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|89175440|gb|CI042461.1|CI042461
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|89166512|gb|CI103798.1|CI103798
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|86864700|gb|CI344238.1|CI344238
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|218487222|gb|FG954424.1|FG954424
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|9865324|gb|AU101074.1|AU101074
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|88840618|gb|CI080072.1|CI080072
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|88828251|gb|CI000360.1|CI000360
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|88989253|gb|CI043752.1|CI043752
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|88969121|gb|CI099072.1|CI099072
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|88273195|gb|CI388651.1|CI388651
EST:     GAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATTTTAACCTAGAAGAGTTT
genomic: GAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|88979202|gb|CI025704.1|CI025704
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
EST: gi|89186491|gb|CI048163.1|CI048163
EST:     AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAG                         ATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT
genomic: AGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTT

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), 75 (downstream exon)
Score: 62

CATTGAAAGTCTTGACCCAGCTTTGCTTCGACCTGGTCGGATAGACAGAAAGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtgcttttct ... ttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTTGTGATGACCAAGGATGAGTTTTCTGGTGCTGACATCAAAGCAATATGTA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagttctgtcttattggaaacctgcttcgttcttatcaatagtttttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTTGTGATGACCAAGGATGAGTTTTCTGGTGCTGACATCAAAGCAATATGTA
                                          ttttt  CT-rich tract
                                ttatcaatagttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcttttctacaatgtttcaagttctgtcttattggaaacctgcttcgttcttatcaatagtttttgggtgcagATACACACATCTAAGATGACATTGGCAGATGATGTTAACCTAGAAGAGTTTGTGATGACCAAGGATGAGTTTTCTGGTGCTGACATCAAAGCAATATGTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA