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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgttgtgctttgatctcaactgttggctgctgtaataatagttgatttgtcacttgaacatcaaattcatcagctcttttagaaacacaaccgtcaatataacctttggattgttgatctgtattagtagctcatgtggatatacttctcttcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCTGGGTTCAAGAAGGACGAGAAGCAGCTTGATTCTGATATTCACCGCAAGT

Basic information

species Oryza sativa
transcript LOC_Os01g67126.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g67126.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G163081_T04 (Zea mays), 3'ss of exon 6
gtgtgttgtgctttgatctcaactgttggctgctgtaataatagt-tgatttgtcacttgaacatcaaattcatcagctcttttagaaacacaaccgtcaatataacctttggat-tgttgatctgtattagtagctcatgtggatatacttctcttctt-ctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCTGGGTTCAAGAAGGACGAGAAGCAGCTTGATTCTGATATTCACCGCAAGT
|| | |  |  | || |    ||  |  | |  | || |  |    |  |||||   | |  ||||||    |     | ||| |    |    | || |   | | || | | | || ||| |  | ||   | |||    |    |    |  || || | ||||||||| |||||||| || || || ||||||||||| || |||||||||||||| |||||||||||||| |||||| | ||| ||||||  ||||||| ||
gtatat-atcttctgtttgttaccat--gatattatattggtgtcattgtttgtatttagcccatcaagaataatcattttttcatgtgc-ttgctgtaagagtcatctcttgttgtggtgaacgat-ttcccatctctctagcccctttaacgtttgttgccgcagGGAGCATTGGATGGAGGCCTGGATATTCCTCACAGCGAGAAGAGGTTTGCTGGATTCAAGAAGGACGACAAGCAGTTGGATGCTGATACCCACCGCAGGT

upper sequence: LOC_Os01g67126.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G163081_T03 (Zea mays), 3'ss of exon 6
gtgtgttgtgctttgatctcaactgttggctgctgtaataatagt-tgatttgtcacttgaacatcaaattcatcagctcttttagaaacacaaccgtcaatataacctttggat-tgttgatctgtattagtagctcatgtggatatacttctcttctt-ctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCTGGGTTCAAGAAGGACGAGAAGCAGCTTGATTCTGATATTCACCGCAAGT
|| | |  |  | || |    ||  |  | |  | || |  |    |  |||||   | |  ||||||    |     | ||| |    |    | || |   | | || | | | || ||| |  | ||   | |||    |    |    |  || || | ||||||||| |||||||| || || || ||||||||||| || |||||||||||||| |||||||||||||| |||||| | ||| ||||||  |||||||   
gtatat-atcttctgtttgttaccat--gatattatattggtgtcattgtttgtatttagcccatcaagaataatcattttttcatgtgc-ttgctgtaagagtcatctcttgttgtggtgaacgat-ttcccatctctctagcccctttaacgtttgttgccgcagGGAGCATTGGATGGAGGCCTGGATATTCCTCACAGCGAGAAGAGGTTTGCTGGATTCAAGAAGGACGACAAGCAGTTGGATGCTGATACCCACCGCAG--

upper sequence: LOC_Os01g67126.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G163081_T02 (Zea mays), 3'ss of exon 6
gtgtgttgtgctttgatctcaactgttggctgctgtaataatagt-tgatttgtcacttgaacatcaaattcatcagctcttttagaaacacaaccgtcaatataacctttggat-tgttgatctgtattagtagctcatgtggatatacttctcttctt-ctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCTGGGTTCAAGAAGGACGAGAAGCAGCTTGATTCTGATATTCACCGCAAGT
|| | |  |  | || |    ||  |  | |  | || |  |    |  |||||   | |  ||||||    |     | ||| |    |    | || |   | | || | | | || ||| |  | ||   | |||    |    |    |  || || | ||||||||| |||||||| || || || ||||||||||| || |||||||||||||| |||||||||                                     
gtatat-atcttctgtttgttaccat--gatattatattggtgtcattgtttgtatttagcccatcaagaataatcattttttcatgtgc-ttgctgtaagagtcatctcttgttgtggtgaacgat-ttcccatctctctagcccctttaacgtttgttgccgcagGGAGCATTGGATGGAGGCCTGGATATTCCTCACAGCGAGAAGAGGTTTGCTGGATTCAAGAAG-------------------------------------

upper sequence: LOC_Os01g67126.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G090738_T01 (Zea mays), 3'ss of exon 6
gtgtgttgtgctttgatctcaactgttggctgctgtaataatagttgatttgtcacttgaacatcaaattcatcagctcttttagaaacacaaccgtcaatataacctttggattgttgatctgtattagtagctcatgtggatatacttctcttctt-ctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCTGGGTTCAAGAAGGACGAGAAGCAGCTTGATTCTGATATTCACCGCAAGT
                                                               ||  ||| |||   | |      |||   ||  |   | ||   |||      |   | | |||   ||||  || |  | | |     ||| || |||||||||||||||||||||||||| || ||||||||||| || |||||||||||||| ||||||||||| || |||||||| ||| ||||||| ||||||||||
--------------------------------------------------------------ttcccatttatctaatttccattgaactatacttttgttgta-tgtttaaggaatatgtttttatggatagc--attttaacacaagatgcttgttgctgcagGGAGCTTTGGATGGTGGTCTAGATATTCCTCACAGCGATAAGAGGTTTGCTGGCTTCAAGAAGGATGATAAGCAGCTGGATGCTGATATCCACCGCAAGT

upper sequence: LOC_Os01g67126.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM5G815894_T03 (Zea mays), 3'ss of exon 6
--gtgtgttgtgcttt-gatctca-actgttggctgctgtaataatagttgatttgtcacttgaacatcaaattcatcagctcttt-tagaaacacaaccgtcaatataacctttg----gattgttgatctgtattagtagctcatgtggatatacttc--tcttcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCTGGGTTCAAGAAGGACGAGAAGCAGCTTGATTCTGATATTCACCGCAAGT
     |||  | |||| ||| |||   ||||   |  ||   |  | |||  |   |  ||     ||   | | || |  | |||  |  |||        |||   | | |||     || || |  ||  | |  |||| |  |     | |  | |  | |  | ||||||||||||||||||||||| || || ||||||||||| || |||||||||||||| ||||||||||| || |||||||| ||| ||||||| || |||||||
gtacatgtcttccttttgatgtcatgatgttatat-ttggggtgtttgtttgtagttagctcattaatagtaataataatttttttgcatgaacttgttgtacaaggcatcttttatggtgactggttttccatctctgtagttttttaacgtttgttgcattatgttgctgcagGGAGCTTTGGATGGTGGACTGGATATTCCTCACAGCGAGAAGAGGTTTGCTGGTTTCAAGAAGGATGACAAGCAGCTGGATGCTGATATCCATCGCAAGT

upper sequence: LOC_Os01g67126.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GLYMA07G06590.1 (Glycine max), 3'ss of exon 6
gtgtgttgtgctttgatctcaactgttggctgctgtaataatagttgatttgtcacttgaacatcaaattcatcagctcttttagaaacacaaccgtcaatataacctttggattgttgatctgtattagtagctcatgtggatatacttctcttcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCTGGGTTCAAGAAGGACGAGAAGCAGCTTGATTCTGATATTCACCGCAAGT
                                                                                 | |   |    || || |   ||| |  ||   | ||| | |  | | || | |||  | ||   |  | |  |  | | ||||||||| ||||||| ||  | || ||||||||||||||||||||||||||||||||  | |||||  ||||| |||||||| | ||  |||| || || |
--------------------------------------------------------------------------------gtaatctatcatactgtaatgttaatcagtgtgattttgtttt--aatggttgatcaaattgaataatctgtgattgtttacagGGAGCTCTGGATGGGGGGTTGGATATTCCTCACAGTGACAAGAGGTTTGCTGGGTTTGATAAGGAGAAGAAGGAGCTTGATGCAGAGGTTCATCGGAAAT

upper sequence: LOC_Os01g67126.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GLYMA16G03170.1 (Glycine max), 3'ss of exon 6
gtgtgttgtgctttgatctcaactgttggctgctgtaataatagttgatttgtcacttgaacatcaaattcatcagctcttttagaaacacaaccgtcaatataacctttggattgttgatctgtattagtagc--tcatgtggatatacttctcttcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCTGGGTTCAAGAAGGACGAGAAGCAGCTTGATTCTGATATTCACCGCAAGT
                                                                                    | ||   | |   |   |   |   | | | ||   | ||| ||| | |   |||  | ||   | || |  |  | | ||||||||| ||||||| ||| | || |||||||| |||||||||||||||||||||||  | |||||  ||||| |||||||| ||||  | || ||||| |
------------------------------------------------------------------------------------gtaatctatcatactgcaatgctaattggt-gtgattttgttttaatggtgatcaaattgaataattttttattgtttacagGGAGCTCTGGATGGGGGTTTGGATATTCCTCATAGTGACAAGAGGTTTGCTGGGTTTGATAAGGAGAAGAAGGAGCTTGATGCTGAGGTGCATCGCAAAT

upper sequence: LOC_Os01g67126.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GLYMA07G06580.1 (Glycine max), 3'ss of exon 6
gtgtgttgtgctttgatctcaactgttggctgctgtaataatagttgatttgtcacttgaacatcaaattcatcagctcttttagaaacacaac-cgtcaatataacctttggattgttgatctgtattagtagctcatgtggatatacttctcttcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCTGGGTTCAAGAAGGACGAGAAGCAGCTTGATTCTGATATTCACCGCAAGT
                                                                                    | ||   | |  |     ||     |  |  || |  | | || | || | |||  | ||   |  | |  |  | | ||||||||| ||||||| ||  | || |||||||||||||| |||||||||||||||||  | |||||  ||||| |||||||| ||||  |||| ||||| |
------------------------------------------------------------------------------------gtaatctatcatgctgtaatgttaatcagtgtgattttttttaatggttgatcaaattgaataatctgtgattgtttacagGGAGCTCTGGATGGGGGGTTGGATATTCCTCACAGTGATAAGAGGTTTGCTGGGTTTGATAAGGAAAAGAAGGAGCTTGATGCTGAGGTTCATCGCAAAT

upper sequence: LOC_Os01g67126.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GLYMA13G35580.2 (Glycine max), 3'ss of exon 6
gtgtgttgtgctttgatctcaactgttggctgctgtaataatagttgatttgtcacttgaacatcaaattcatcagctcttttagaaacacaaccgtcaatataacctttggattgttgatctgtattagtagc--tcatgtggatatacttctcttcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCTGGGTTCAAGAAGGACGAGAAGCAGCTTGATTCTGATATTCACCGCAAGT
                                                                                         |   |    | |  |||  ||||  | |   | ||| ||||| |   |||  |  | ||| || |  |  | | ||||||||| ||||||| ||| | || ||||||||||| ||||||||||||||||||||  | |||||  ||||| |||||||| ||||  |||| ||||| |
--------------------------------------------------------------------------------------gtaatctctaatactgcaactcttgg--tatgattttgttttagtggtggtcaaatcta-ataattgtgatggtttacagGGAGCTCTGGATGGGGGTTTGGATATTCCTCACAGCGACAAGAGGTTTGCTGGGTTTGATAAGGAGAAGAAGGAGCTTGATGCTGAGGTTCATCGCAAAT

upper sequence: LOC_Os01g67126.1 (Oryza sativa), 3'ss of exon 6
lower sequence: AT5G39740.2 (Arabidopsis thaliana), 3'ss of exon 6
gtgtgttgtgctttgatctcaactgttggctgctgtaataatagttgatttgtcacttgaacatcaaattcatcagctcttttagaaacacaaccgtcaatataacctttggattgttgatctgtattagtagctcatgtggatatacttctcttcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCTGGGTTCAAGAAGGACGAGAAGCAGCTTGATTCTGATATTCACCGCAAGT
                                         || |||  || | |  ||    ||    |  | | || || || |        | |  || | |   |     |    |||  |  || ||   | ||| | | | ||||  |    ||  ||||||||||||| || |||||||| || ||||||||||||||||| |||||||| ||| | || ||  | ||||| |||||| |||| || ||| | || |
----------------------------------------gta-ttgtgttttaatgtggttgtctgtgttcttatctgttgtatag-tgtgttcat-gatttgaagatgatgctagcaatcctt--taata--ccctgttggtttgcttca-tgaaactatagGGAGCTTTGGACGGAGGTCTTGATATCCCTCACAGTGACAAGAGATTTGCTGGTTTCCACAAAGAGAACAAGCAACTTGATGCTGAAATCCACAGGAACT

upper sequence: LOC_Os01g67126.1 (Oryza sativa), 3'ss of exon 6
lower sequence: AT3G25520.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgtgttgtgctttgatctcaactgttggctgctgtaataatagttgatttgtcacttgaacatcaaattcatcagctcttttagaaa-cacaaccgtcaatataacctttggattgttgatctgtattagtagctcatgtggatatacttctcttcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCTGGGTTCAAGAAGGACGAGAAGCAGCTTGATTCTGATATTCACCGCAAGT
                                         || || | ||||  ||      |     |  | ||  || |||     ||      |  |   ||   ||  | ||   ||   |  || ||  || | | | |   ||  | |   |||| |||| |||||||||||||||||||| || ||||||||||||||||| |||||||||||| | |||||  | ||||| |||||| |||| || ||| | || |
----------------------------------------gta-ttaacttgtttctctttttttg---ttgtgagtgctcttatttgtcattcttcttgagcaaatgcttatactggcaattctt--taata--tccttttggttcgctgtt-tgaatctgtagGGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAGATTTGCTGGGTTCCACAAGGAGAACAAGCAACTTGATGCTGAAATCCACAGGAACT

upper sequence: LOC_Os01g67126.1 (Oryza sativa), 3'ss of exon 6
lower sequence: Vv04s0008g00050.t01 (Vitis vinifera), 3'ss of exon 1
gtgtgttgtgctttgatctcaactgttggctgctgtaataatagttgatttgtcacttgaacatcaaattcatcagctcttttagaaacacaaccgtcaatataacctttggattgttgatctgtattagtagctcatgtggatatacttctcttcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCTGGGTTCAAGAAGGACGAGAAGCAGCTTGATTCTGATATTCACCGCAAGT
                                                                                               |||  | | |   ||||| |  |||     |  |  | ||   |      |   | |  |  |||| ||||||| |||||||||||  | ||||||||||||||||||||||| |||  ||| |||   || ||    |||||||||||| | ||  ||||||| ||||
---------------------------------------------------------------------------------------------gtgtctttcttaatgttggacttctgag----aacaacaactg--gcaatcgtgtgtttggtgctctgaagGGAGCATTGGATGGTGGCTTGGACATTCCTCACAGTGACAAGAGATTTTTTGGATTCTCAAATGATAGCAAGCAGCTTGATGCCGAGGTTCACCGAAAGT

upper sequence: LOC_Os01g67126.1 (Oryza sativa), 3'ss of exon 6
lower sequence: Vv05s0094g00870.t01 (Vitis vinifera), 3'ss of exon 6
gtgtgttgtgctttgatctcaactgttggctgctgtaataatagttgatttgtcacttgaacatcaaattcatcagctcttttagaaacacaaccgtcaatataacctttggattgttgatctgtattagtagctcatgtggatatacttctcttcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCTGGGTTCAAGAAGGACGAGAAGCAGCTTGATTCTGATATTCACCGCAAGT
                                                      ||   |   || | ||||| |  |  ||             |  ||| |   |||  |  |  | ||    |     ||||   |   || || ||    |   || ||||||||  ||||||||||  | ||||||||||||||||||||||| |||||||| |||   |||||    |||||||||||| | ||  |||| || ||||
-----------------------------------------------------tacactactgtcca-ttcatgacatgctt---gtttttggttg--aatgtttacttgagtctacttattccca-----agctagaggtcatttaatttcaattaactacagGGAGCACTGGATGGTGGCTTGGACATTCCTCACAGTGACAAGAGATTTGCTGGATTCTCAAAGGATAGCAAGCAGCTTGATGCCGAGGTTCATCGAAAGT

upper sequence: LOC_Os01g67126.1 (Oryza sativa), 3'ss of exon 6
lower sequence: Vv00s0174g00190.t01 (Vitis vinifera), 3'ss of exon 6
gtgtgttgtgctttgatctcaactgttggctgctgtaataatagttgatttgtcacttgaacatcaaattcatcagctcttttagaaacacaaccgtcaatataacctttggattgttgatctgtattagtagctcatgtggatatacttctcttcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCTGGGTTCAAGAAGGACGAGAAGCAGCTTGATTCTGATATTCACCGCAAGT----
                                                              |   | | ||   | |  ||||       |   | | ||  || |  |   ||  |  |  |  | || || |       |  |  |||   |    | |||||||| ||||||||||| ||||| ||||||||||||||||||||||||||||| ||||  | ||| |  ||||| |||||| ||||| ||||||||||||    
-------------------------------------------------------------aaatgattccagatgattctttaattttgaatttgcccattcaaaccatctcttcatcttgagcctcagcagtt-------acctgtttcctcttaattccagggagCATTGGATGGTGGACTTGATATTCCTCACAGTGACAAGAGGTTTGCTGGATTCAGCAGGGATGGTAAGCAACTTGATGCTGATGTTCACCGCAAGTATAT

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|88766068|gb|CI775158.1|CI775158
EST:     TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAG                         GGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
genomic: TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGgtgtgttgtg ... tcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
EST: gi|218499062|gb|FG952648.1|FG952648
EST:     TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAG                         GGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
genomic: TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGgtgtgttgtg ... tcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
EST: gi|58688294|gb|CK076981.1|CK076981
EST:     TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAG                         GGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
genomic: TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGgtgtgttgtg ... tcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
EST: gi|2443100|gb|C74871.1|C74871
EST:     TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAG                         GGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
genomic: TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGgtgtgttgtg ... tcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
EST: gi|33794896|gb|CF323328.1|CF323328
EST:     TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAG                         GGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
genomic: TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGgtgtgttgtg ... tcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
EST: gi|55410467|gb|CV722843.1|CV722843
EST:     TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAG                         GGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
genomic: TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGgtgtgttgtg ... tcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
EST: gi|218483963|gb|FG953648.1|FG953648
EST:     TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAG                         GGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAAGTTTGCT
genomic: TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGgtgtgttgtg ... tcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
EST: gi|88741629|gb|CI765137.1|CI765137
EST:     TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAG                         GGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
genomic: TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGgtgtgttgtg ... tcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
EST: gi|218499324|gb|FG966003.1|FG966003
EST:     TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAG                         GGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
genomic: TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGgtgtgttgtg ... tcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
EST: gi|88736334|gb|CI759842.1|CI759842
EST:     TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAG                         GGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
genomic: TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGgtgtgttgtg ... tcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
EST: gi|396941604|gb|HO188261.1|HO188261
EST:     TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAG                         GGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
genomic: TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGgtgtgttgtg ... tcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
EST: gi|86898441|gb|CI292329.1|CI292329
EST:     TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAG                         GGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
genomic: TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGgtgtgttgtg ... tcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
EST: gi|4879230|gb|AU063529.1|AU063529
EST:     TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAG                         GGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
genomic: TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGgtgtgttgtg ... tcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
EST: gi|218497228|gb|FG948508.1|FG948508
EST:     TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAG                         GGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
genomic: TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGgtgtgttgtg ... tcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
EST: gi|163927771|gb|EG712507.1|EG712507
EST:     TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAG                         GGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT
genomic: TTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGgtgtgttgtg ... tcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCT

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: 448

CTATGTTGAACCAGCTGATGAAAGGAGGCCTTTCCGTGCTCTCTTGGATGTTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGgtgtgttgtg ... tcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCTGGGTTCAAGAAGGACGAGAAGCAGCTTGATTCTGATATTCACCGCAAGT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggattgttgatctgtattagtagctcatgtggatatacttctcttcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCTGGGTTCAAGAAGGACGAGAAGCAGCTTGATTCTGATATTCACCGCAAGT
     tgttgat  putative branch site (score: 448)
                                  tatacttctcttcttc  putative PPT
               tattagta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgttgtgctttgatctcaactgttggctgctgtaataatagttgatttgtcacttgaacatcaaattcatcagctcttttagaaacacaaccgtcaatataacctttggattgttgatctgtattagtagctcatgtggatatacttctcttcttctgcagGGAGCTTTGGATGGTGGTCTTGACATTCCTCACAGTGACAAGAGGTTTGCTGGGTTCAAGAAGGACGAGAAGCAGCTTGATTCTGATATTCACCGCAAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT