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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacataacttgctgagttgctggagtttttcacttgcttgctcagtgtttaatttgttttttcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTG

Basic information

species Zea mays
transcript GRMZM2G061745_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G061745_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os04g56646.1 (Oryza sativa), 3'ss of exon 4
gtacataacttgctgagttgctggagtttttcacttgcttgctcagtgt--ttaatttg--ttttttcctttacagAATGCAACTCAGAAA-AGTCAGAAGGTATTTGTCCATGTTCCTTCAG-AAATTGCAGCTCATGAAGTTGAGGAAATTG
                 ||  ||   || | || |  |||| || || |  ||||| |   | || || |||||||||||| ||||| ||| ||||| ||||| ||||| ||||||||||||| |||| || || || || ||||||||||| |
---------------gtttattgtgcttgtccattgtcttgttctgtttcattaatgtacatgttgtcttttacagAATGCTACTCAAAAACAGTCAAAAGGTGTTTGTTCATGTTCCTTCAGCAAATAGCTGCCCACGAGGTTGAGGAAATCG

upper sequence: GRMZM2G061745_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA20G03160.1 (Glycine max), 3'ss of exon 4
-----------gtacataac--ttgctgagttgctggagtttttcacttgcttgctcagtgttt----aatttg---------ttttttcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTG
           |||  | |   | |  | |  ||| | ||||        |    | ||| ||     ||  ||         || ||   | |||| ||||| ||||| |||||||| ||||||||| | ||||| || ||||| |||||  || ||||||||||||||||  
gtaatcctgatgtatgtgatggtgggaggggagctagtgtttgctcaacacaaaattagtattccaagaaactgacatatagTTTATTCTGTGTACATAATGCCACTCAAAAAAGTCAAAAGGTATTTATACATGTGCCATCAGAGATTGCTACTAATGAAGTTGAGGAAATAT

upper sequence: GRMZM2G061745_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA11G34980.1 (Glycine max), 3'ss of exon 4
--------------------------------------------------------------------------------gtacataac--ttgctgagttgctggagtttttcacttgcttgctcagtgtt---------taatttgttttttccttt----acagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTG
                                                                                |||  | |   | |    |  ||| | ||||        ||   | |||  |         |||| | |  |||  | |    ||||||||| ||||| |||||||| || || ||||| ||||| || ||||| ||||| |||||||||||||||||||| |
gtacaaattaagtccgtcatatctttgatagaaatcttatatatctgttcttgctgatattttgcaaaagtaatcctgctgtatgtgatggtgggacgggagctagtgtttgctcaacactaaattagtactcaaagaaactaatatatagtttattctgagtacagAATGCCACTCAAAAAAGTCAAAAAGTGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAG

upper sequence: GRMZM2G061745_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA18G03360.1 (Glycine max), 3'ss of exon 4
---------------------------------------------------------------------------------gtacataac--ttgctgagttgctggagtttttcacttgcttgctcagtgtttaat------------ttgttttttcctt-tacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTG
                                                                                 | |  | |   | |  | |  ||| | ||||        ||   | ||| || ||             | |||| |||  | |||||||||| ||||| |||||||| ||||| ||||| ||||| || ||||| ||||| ||||||||||||||||||||  
ggtacaaattaagtccttcatatctttgatagaattcttatatttctgttcttgctgttattttgcaaaagtaatcctgctgcatgtgatagtgggaggggagctagtgtttgctcaacactaaattagtattcaaaggaactgacatatagtttattctgtgtacaGAATGCCACTCAAAAAAGTCAAAAGGTGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATA-

upper sequence: GRMZM2G061745_T03 (Zea mays), 3'ss of exon 4
lower sequence: AT5G05780.1 (Arabidopsis thaliana), 3'ss of exon 4
---------------gtacataacttgctgagttgctggagtttttcacttgct-tgctcagtgtttaatttg-----ttttttcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTG
                | || |  |||     ||  |  |||| |   |||  | |  ||||    | |||       | |||| || | |||||||| ||||||||||| ||||| || || || |||||  || |||||||||| |||||||||||||||||||| |
gtaagatacaaacccttccaaatattgtcccttttgtaaagttgtatgcttattataatcagatgctgattaaacacttctttttctctccagAATGCTACTCAGAAAAGCCAGAAAGTTTTCGTTCATGTGTCTACAGAAATTGCTGCTCATGAAGTTGAGGAAATCG

upper sequence: GRMZM2G061745_T03 (Zea mays), 3'ss of exon 4
lower sequence: AT3G11270.1 (Arabidopsis thaliana), 3'ss of exon 4
-------------------------------------------------------gtacataacttgctgagttgctggagttttt-cacttgcttgctcagtg--tttaatttg--ttttttcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTG
                                                         |||||  |   | | || ||| | |  ||  |      |    | |    || ||  |   || |  || | |||||||| || |||||||| ||  |||| ||||| || || ||| |||||||||||||||||||||||||||||||||
gtaaataccagccaattttctaaccattttacttgctcgactgttaagttgcatctgacatacttgatttactttctgcattagttatatccatatatctaattgccttgatccgaacttctctctctgcagAATGCTACCCAGAAAAGCCAACAGGTTTTTGTACACGTGCCTACAGAAATTGCAGCTCATGAAGTTGAGGAAATTG

upper sequence: GRMZM2G061745_T03 (Zea mays), 3'ss of exon 4
lower sequence: AT3G11270.2 (Arabidopsis thaliana), 3'ss of exon 4
----------------------------------------------------------------gtacataacttgctgagttgctggagttttt-cacttgcttgctcagtg--tttaatttg--ttttttcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTG
                                                                  |||||  |   | | || ||| | |  ||  |      |    | |    || ||  |   || |  || | |||||||| || |||||||| ||  |||| ||||| || || ||| |||||||||||||||||||||||||||||||||
gtgaaagaggtaaataccagccaattttctaaccattttacttgctcgactgttaagttgcatctgacatacttgatttactttctgcattagttatatccatatatctaattgccttgatccgaacttctctctctgcagAATGCTACCCAGAAAAGCCAACAGGTTTTTGTACACGTGCCTACAGAAATTGCAGCTCATGAAGTTGAGGAAATTG

upper sequence: GRMZM2G061745_T03 (Zea mays), 3'ss of exon 4
lower sequence: AT5G05780.2 (Arabidopsis thaliana), 3'ss of exon 4
------------------------gtacataacttgctgagttgctggagtttttcacttgct-tgctcagtgtttaatttg-----ttttttcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTG
                         | || |  |||     ||  |  |||| |   |||  | |  ||||    | |||       | |||| || | |||||||| ||||||||||| ||||| || || || |||||  || |||||||||| |||||||||||||||||||| |
gttaaggaggtaagatacaaacccttccaaatattgtcccttttgtaaagttgtatgcttattataatcagatgctgattaaacacttctttttctctccagAATGCTACTCAGAAAAGCCAGAAAGTTTTCGTTCATGTGTCTACAGAAATTGCTGCTCATGAAGTTGAGGAAATCG

upper sequence: GRMZM2G061745_T03 (Zea mays), 3'ss of exon 4
lower sequence: Vv08s0007g01980.t01 (Vitis vinifera), 3'ss of exon 4
-----------------------------------------------------------------------gtacataacttgctgagttgctg----gagtttttcacttgcttgctcagt--gtttaatttgttttttcctt-----tacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTG
                                                                       |     | |||||||| || |||         ||||| |    ||    ||  ||||| | |  |  || |||     |||||||||| || |||||||| |||||||| ||||||||||| || || |||||||| ||||||||||||||||||||||
gtaagaactaagaacatctttaatgttttcttatttagctggtgcatgattgatcagttacattttattcagcttgaatcttgctgacttactgtctaagacatttcattaaaatgacttgttggtttactctaatgcttgcttatggttacagAATGCTACCCAGAAAAGCCAGAAGGTTTTTGTCCATGTCCCATCTGAAATTGCTGCTCATGAAGTTGAGGAAATTG

upper sequence: GRMZM2G061745_T03 (Zea mays), 3'ss of exon 4
lower sequence: Vv02s0025g01490.t01 (Vitis vinifera), 3'ss of exon 4
-------------------------------------------------------------------------gtacataacttgctgagttgctggagtttttcacttgc-ttgctcagtg-tttaatttgttttttcctt-----tacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTG
                                                                         | | ||  |  | | | |   |       | ||||    || || |||| |||| | |  |  || |||     |||||||||| ||||||||||| ||||| || ||||||||  | ||||| |||||||| ||||||||||||||||||||||
gtacaactaagaatatcataatgttttttcatttagctggtgcatgattgatcagttacatcataccaagcttgaatatggccagtttactgtttaagaagctccactgatattacttagtggtttactctaatgcttgcttatggttacagAATGCCACTCAGAAAAGCCAGAAAGTTTTTGTCCACATACCTTCTGAAATTGCTGCTCATGAAGTTGAGGAAATTG

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|91048122|gb|EB158540.1|EB158540
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAGGGTATTTGTCCATGTTTCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|60348273|gb|DN215246.1|DN215246
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|20811186|gb|BQ295664.1|BQ295664
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|211385219|gb|FK956040.1|FK956040
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|149014660|gb|EE044326.2|EE044326
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|148958380|gb|EC904610.2|EC904610
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|31664405|gb|CD573130.1|CD573130
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|148960678|gb|EE011309.2|EE011309
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|149013823|gb|EE043297.2|EE043297
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|50325946|gb|CO521072.1|CO521072
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|211111338|gb|FL202663.1|FL202663
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTC
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTC
EST: gi|76015327|gb|DT942497.1|DT942497
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|149081616|gb|EE170759.2|EE170759
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|22818902|gb|BU498992.1|BU498992
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAAGGTATTTGTCCAT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAA-GGTATTTGTCCAT
EST: gi|211382590|gb|FK956032.1|FK956032
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|101396014|gb|EB819936.1|EB819936
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTTCAGAA
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACT-CAGAA
EST: gi|44681759|gb|CK786807.1|CK786807
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAAAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|91055801|gb|EB166219.1|EB166219
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|211382594|gb|FK956036.1|FK956036
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|78081122|gb|DV509534.1|DV509534
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|26456947|gb|CA828530.1|CA828530
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|148943844|gb|EC888923.2|EC888923
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|148935087|gb|EC879128.2|EC879128
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|148971131|gb|EE021979.2|EE021979
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|211222269|gb|FL202715.1|FL202715
EST:     AGCTGGGTATACCGACCAAARCGTACTATGCTGTGGAGGAGGTTAAAGAG                         AATGCGACTCA
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCA
EST: gi|60350695|gb|DN217668.1|DN217668
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTC
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTC
EST: gi|89756277|gb|DY686359.1|DY686359
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCCACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTTCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|62525906|gb|DN828554.1|DN828554
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|211385222|gb|FK956043.1|FK956043
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|149072304|gb|EE160567.2|EE160567
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|149107089|gb|EE188981.2|EE188981
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATT
EST: gi|211112260|gb|FL202681.1|FL202681
EST:     AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAG                         AATGCAACTCAGAAAAGTCA
genomic: AGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCA

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: 48 (upstream exon), 49 (downstream exon)
Score: 308

TTATGTTCCTAATCCAGTCTTGGTGATTATTGATGTCCAACCCAAGGAGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 254

TTATGTTCCTAATCCAGTCTTGGTGATTATTGATGTCCAACCCAAGGAGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 224

TTATGTTCCTAATCCAGTCTTGGTGATTATTGATGTCCAACCCAAGGAGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 179

TTATGTTCCTAATCCAGTCTTGGTGATTATTGATGTCCAACCCAAGGAGCTGGGTATACCGACCAAAGCGTACTACGCTGTGGAGGAGGTTAAAGAGgtacataact ... tcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctggagtttttcacttgcttgctcagtgtttaatttgttttttcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTG
                              gtttaat  putative branch site (score: 179)
                                    tttgttttttccttta  CT-rich tract
                               tttaatttgttttttc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacataacttgctgagttgctggagtttttcacttgcttgctcagtgtttaatttgttttttcctttacagAATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA