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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatactgaagaagctacaagatagaaacctgtttattaaccttccaaagaaaactgcttattgctttacaagagatgatcacaagtagtacttagaaagtgaataatgtgtacttttgtgctaacaatcaccatgatactgtaggatgtaccttcataaactcaggacaactgacattgttgccaatttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAG

Basic information

species Zea mays
transcript GRMZM2G115948_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G824831_T03 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g42320.1 (Oryza sativa), 3'ss of exon 6
gtatactgaagaagctacaagatagaaacctgtttattaaccttccaaagaaaactgcttattgctttacaagagatgatcacaagtagtacttagaaagtgaataatgtgtacttttgtgctaacaatcaccatgatactgtaggatgtaccttcataaactcaggacaactgacattgttgccaatttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAG
                                                                                                |   |   |  | || |||    |  || |  |||   ||  |   |  | | |    | | |     |  |   | ||  |  |     |||||| ||||||||||||||||||||||||||||||||||| |||||||| ||||| |||||||| |||||||||||||| ||||||||||| ||
------------------------------------------------------------------------------------------------agttttgttcttctggactgaaattttacctgtcaatttgtcatattttgttatggtgtaaaattggtataatgccagatgtgctgtattatttctacagGTTGATCCCTCAGGATCATACTTCTCCTGGAAAGCATCAGCTATGGGGAAAAATGTCTCCAATGCAAAGACATTTCTTGAAAAAAG

upper sequence: GRMZM5G824831_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA08G17810.2 (Glycine max), 3'ss of exon 8
gtatactgaagaagctacaagatagaaacctgtttattaaccttccaaagaaaactgcttattgctttacaagagatgatcacaagtagtacttagaaagtgaataatgtgtacttttgtgctaacaatcaccatgatactgtaggatgtaccttcataaactcaggacaactgacattgttgccaatttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAG--------------
                                                                                         ||||  | |  |   |  ||| | | ||||    | | |   |  |||   |  | ||       |   |   |   |  |  |||     ||  |  |||||  |||| ||||| ||||| ||||| || || ||||| || || || ||||| |||||||| || |||||||||||||||||||| |||||              
----------------------------------------------------------------------------------------ctact-gggatctctttgttgt-tgcatttga---agctactgctttgaattttaaagagagggaattgaaggtt---gtgatttgatgcaatttgctttttctgtagGTGGATCCATCAGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCTAATGCAAAGACGTTTCTTGAGAAGAGGTAAGCTTTTCATC

upper sequence: GRMZM5G824831_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA03G16660.1 (Glycine max), 3'ss of exon 8
gtatactgaagaagctacaagatagaaacctgtttattaaccttccaaagaaaactgcttattgctttacaagagatgatcacaagtagtacttagaaagtgaataatgtgtacttttgtgctaacaatcaccatgatactgtaggatgtaccttcataaactcaggacaactgacattgttgccaatttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAG
                                                                                      | ||| |||  |  ||  |||  | ||||  | ||      |     | |  | || ||| |||   || ||    |              || ||     |||||  |||| ||||| ||||| ||||| || || ||||| || || || ||||| |||||||| || ||||||||||| |||||||| |||||
-----------------------------------------------------------------------------------ttattgtatttaagacttgtttaaaat-tactgctttgaattttaaagagagggaattgaaggttgtgatttgatgtgatt------------ttttttttttttttctgtagGTGGATCCATCAGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCTAATGCAAAGACTTTTCTTGAGAAGAG

upper sequence: GRMZM5G824831_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA01G25940.3 (Glycine max), 3'ss of exon 8
gtatactgaagaagctacaagatagaaacctgtttattaaccttccaaagaaaactgcttattgctttacaagagatgatcacaagtagtacttagaaagtgaataatgtgtacttttgtgctaacaatcaccatgatactgtaggatgtaccttcataaactcaggacaactgacattgttgccaatttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAG
                                                                                        | |  ||  |  |  ||| | | ||  | | |    |  |  |||||  |    |||   | | |     ||  |   ||    |||  |  ||     |||||  |||| ||||| || || ||||| || || ||||| || || || ||||| |||||||| || |||||||||||||||||||| |||||
----------------------------------------------------------------------------------------gcagatactatatatata-tatatatatatatatatatgagtaccatt-tgtaatagagggaatcg----aaggttgtgat--ttgatgtgatttgttttttctgtagGTGGATCCATCGGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAG

upper sequence: GRMZM5G824831_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA08G17810.3 (Glycine max), 3'ss of exon 8
gtatactgaagaagctacaagatagaaacctgtttattaaccttccaaagaaaactgcttattgctttacaagagatgatcacaagtagtacttagaaagtgaataatgtgtacttttgtgctaacaatcaccatgatactgtaggatgtaccttcataaactcaggacaactgacattgttgccaatttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAG
                                                                                         ||||  | |  |   |  ||| | | ||||    | | |   |  |||   |  | ||       |   |   |   |  |  |||     ||  |  |||||  |||| ||||| ||||| ||||| || || ||||| || || || ||||| |||||||| || |||||||||||||||||||| |||||
----------------------------------------------------------------------------------------ctact-gggatctctttgttgt-tgcatttga---agctactgctttgaattttaaagagagggaattgaaggtt---gtgatttgatgcaatttgctttttctgtagGTGGATCCATCAGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCTAATGCAAAGACGTTTCTTGAGAAGAG

upper sequence: GRMZM5G824831_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA15G41330.1 (Glycine max), 3'ss of exon 8
gtatactgaagaagctacaagatagaaacctgtttattaaccttccaaagaaaactgcttattgctttacaagagatgatcacaagtagtacttagaaagtgaataatgtgtacttttgtgctaacaatcaccatgatactgtaggatgtaccttcataaactcaggacaactgacattgttgccaatttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAG
                                                                               |     || | | |||  |  ||  ||| || ||||  | |       |     |||  | || ||| |||   || ||              |||  |||||     ||| |  |||| ||||| ||||| ||||| || || ||||| || || || ||||| |||||||| || |||||||||||||||||||| |||||
----------------------------------------------------------------------------ctctttgttgttgcatttaagacttgtttaaagt-tactgctttaaattttaaagagatggaattgaaggttgtgatttgatg-------------tgat-ttgtt-----tttttgtagGTGGATCCATCAGGTTCATATTTTTCTTGGAAAGCTTCTGCTATGGGGAAAAATGTTTCTAATGCAAAGACGTTTCTTGAGAAGAG

upper sequence: GRMZM5G824831_T03 (Zea mays), 3'ss of exon 8
lower sequence: AT1G79210.3 (Arabidopsis thaliana), 3'ss of exon 8
gtatactgaagaagctacaagatagaaacctgtttattaaccttccaaagaaaactgcttattgctttacaagagatgatcacaagtagtacttagaaagtgaataatgtgtacttttgtgctaacaatcaccatgatactgtaggatgtaccttcataaactcaggacaactgacattgttgccaatttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAG
                                                                                   |||||| ||||  ||     | ||| |  ||  |  |||| | | | |     |  | |||   || |      | |  ||   | || |  |||||  ||||        |||| ||||| || || || || ||||| ||||| || || || |||||||| ||||| || |||||||||||||||||||| |||||
---------------------------------------------------------------------------------gtaagtagaactttaaag----aaaatata-accatcctgctcaaagtgaagtaaaacccgtaaactgaaaacatcttatttc---ataattttcattg--gcca------ctagGTGGATCCATCTGGCTCTTATTTCTCATGGAAAGCTTCTGCAATGGGAAAGAATGTTTCGAATGCAAAGACGTTTCTTGAGAAGAG

upper sequence: GRMZM5G824831_T03 (Zea mays), 3'ss of exon 8
lower sequence: Vv01s0011g01960.t01 (Vitis vinifera), 3'ss of exon 7
gtatactgaagaagctacaagatagaaacctgtttattaaccttccaaagaaaactgcttattgctttacaagagatgatcacaagtagtacttagaaagtgaataatgtgtacttttgtgctaacaatcaccatgatactgtaggatgtaccttcataaactcaggacaactgacattgttgccaatttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAG
                                                                                       | || |    ||||    | | |||  ||||   ||| |   ||  |  ||| ||    |  |  || |  | | |||       | || |  ||    ||  ||  |||| ||||| ||||| ||||| ||||| ||||| || || || ||||| || ||||| || ||||||||||| |||||||| |||||
--------------------------------------------------------------------------------------cattatt--ataagttttgagtctgtttttttaccctatcctgcattagtataatgctacaaatttctgctaatattca------tttacttatttat--atgcctctagGTGGATCCATCAGGTTCATATTTCTCATGGAAAGCCTCCGCAATGGGGAAGAATGTCTCAAATGCAAAGACATTTCTTGAGAAGAG

upper sequence: GRMZM5G824831_T03 (Zea mays), 3'ss of exon 8
lower sequence: PP1S2_595V6.1 (Physcomitrella patens), 3'ss of exon 7
gtatactgaagaagctacaagatagaaacctgtttattaaccttccaaagaaaactgcttattgctttacaagagatgatcacaagtagtacttagaaagtgaataatgtgtacttttgtgctaacaatcaccatgatactgtaggatgtaccttcataaactcaggacaactgacattgttgccaatttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAG
                                                                                         | |    |   || ||  || |   |   |   |  || | || || |    | ||  | |  |||  ||   | |   | |   | |    ||  | |   | ||||| ||||| ||||||||||||||||| |||||||||||||| || || || |||||||| ||||| ||||| ||  | || || ||
-----------------------------------------------------------------------------------------tccaagaattctgcatgttgcgggttagggccatgtcatttacaatta----ggagcttat-tctttttacggttaattcgatgtaaac--atgatattaagtgcagGTAGATCCATCAGGATCATACTTCTCATGGAAGGCATCAGCAATTGGCAAGAATGTGTCTAATGCGAAGACTTTCTTAGAGAAAAG

upper sequence: GRMZM5G824831_T03 (Zea mays), 3'ss of exon 8
lower sequence: PP1S61_202V6.1 (Physcomitrella patens), 3'ss of exon 7
gtatactgaagaagctacaagatagaaacctgtttattaaccttccaaagaaaactgcttattgctttacaagagatgatcacaagtagtacttagaaagtgaataatgtgtacttttgtgctaacaatcaccatgatactgtaggatgtaccttcataaactcaggacaactgacattgttgccaatttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAG
                                                                                          ||||  |  | || | || || |   | | |  |    |    |  | |||| ||| | ||  |  ||   || |  |  | ||  ||| | || |||||   ||||| ||||| |||||||| |||||||| |||||||||||||| || || || |||||||||||||| ||||| || || || || ||
----------------------------------------------------------------------------------------tgacttgaatggagagtcatttgcagggtagggtcat--gttgtta-aaaactggagg-tttatttgaatgtgcttaacaaga-tgtgattttggcaaattt---cagGTGGATCCTTCAGGATCGTACTTCTCATGGAAGGCATCAGCAATAGGCAAGAATGTGTCCAATGCCAAGACTTTCCTAGAGAAAAG

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|60395022|gb|DN227891.1|DN227891
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|30087632|gb|CB885838.1|CB885838
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|5607822|gb|AI901489.1|AI901489
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|33092266|gb|CF052260.1|CF052260
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|18163469|gb|BM333308.1|BM333308
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|32934147|gb|CF038959.1|CF038959
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|211323462|gb|FL273341.1|FL273341
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|71445139|gb|DR826189.1|DR826189
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|14208317|gb|BG841995.1|BG841995
EST:     AGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: AGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|21331851|gb|BQ487232.1|BQ487232
EST:     AATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: AATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|149076955|gb|EE165612.2|EE165612
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|32830029|gb|CD969707.1|CD969707
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|78123839|gb|DV542223.1|DV542223
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|44901282|gb|CK827827.1|CK827827
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|32930013|gb|CF034825.1|CF034825
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|30306694|gb|CD001367.1|CD001367
EST:     TATCNCTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|60350515|gb|DN217488.1|DN217488
EST:     TATCACTGTTGATTGCTCAGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|32931688|gb|CF036500.1|CF036500
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|60347867|gb|DN214840.1|DN214840
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|74232754|gb|DT640668.1|DT640668
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|60346153|gb|DN213126.1|DN213126
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|32935134|gb|CF039946.1|CF039946
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|5058832|gb|AI737308.1|AI737308
EST:     TTGATTGCTGGGTATGATG-CAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|9951982|gb|BE638565.1|BE638565
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|60356997|gb|DN223970.1|DN223970
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|60339671|gb|DN206644.1|DN206644
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|148987619|gb|EE031493.2|EE031493
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|9566411|gb|BE475920.1|BE475920
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|89763964|gb|DY690939.1|DY690939
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|78022228|gb|DV490615.1|DV490615
EST:     GCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: GCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|211323463|gb|FL273342.1|FL273342
EST:     TGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTHTCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATYARCCATGGGAAAA
genomic: TGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|5915175|gb|AW052816.1|AW052816
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|78118765|gb|DV537149.1|DV537149
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|30032061|gb|CB833912.1|CB833912
EST:     TATCACTGTTGATGGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|6952555|gb|AW424623.1|AW424623
EST:     ACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATNCTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: ACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|211258486|gb|FL474162.1|FL474162
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|5608197|gb|AI901864.1|AI901864
EST:     TATCNCTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|60339580|gb|DN206553.1|DN206553
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|50322577|gb|CO517703.1|CO517703
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|9462069|gb|BE454045.1|BE454045
EST:     TGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTTTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|76918600|gb|DV167369.1|DV167369
EST:     TGTTGATTGCTGGGGTATGATGACAATGGCCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTTTCCTGGAAGGCATCAGCCATGGGAAAA
genomic: TGTTGATTGCT-GGGTATGATGACAATGG-CCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA
EST: gi|211323464|gb|FL273343.1|FL273343
EST:     TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAG                         GTTGATCCCTCAGGATCATACTTCTCCTGGAAG-CATCAGCCATGGGAAAA
genomic: TATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAA

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 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1051

TGGTGTGAGACCATTTGGAGTATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 780

TGGTGTGAGACCATTTGGAGTATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 736

TGGTGTGAGACCATTTGGAGTATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 552

TGGTGTGAGACCATTTGGAGTATCACTGTTGATTGCTGGGTATGATGACAATGGCCCGCAGTTGTATCAGgtatactgaa ... atttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaggatgtaccttcataaactcaggacaactgacattgttgccaatttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAG
                            aactgac  putative branch site (score: 552)
                                              tttcttc  putative PPT
            ttcataaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatactgaagaagctacaagatagaaacctgtttattaaccttccaaagaaaactgcttattgctttacaagagatgatcacaagtagtacttagaaagtgaataatgtgtacttttgtgctaacaatcaccatgatactgtaggatgtaccttcataaactcaggacaactgacattgttgccaatttcttcagGTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCCAATGCAAAGACGTTTCTTGAAAAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG