Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttcttactgaaattgttctccaaaaacatgttttcaatgggaaaacttgttacctgggttgctcattatgtattctgtcttcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATATTGTATCTAAGGGACATTGCGGATGCCGACAAGTTGGTTGCAGCTATGC

Basic information

species Zea mays
transcript GRMZM2G134708_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G134708_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os08g44340.1 (Oryza sativa), 3'ss of exon 5
----gttagttcttactgaaattgttctccaaaaacatgttttcaatgggaaaacttgttacctgg-gttgctcat--tatgtat-tctgtcttcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATATTGTATCTAAGGGACATTGCGGATGCCGACAAGTTGGTTGCAGCTATGC
    | ||  | || || |  |  || |      | ||       | | | |   ||||     |  |||||||||   ||| |  ||||||| | || ||||||||||||||||||||| ||||||||||||||||||||  ||||| |||||||||| || ||||| |||| ||| || ||||||||||| || |||||||
cagagcta--tgttgctcatgtcatttttttggga-atacgcgagacgcgcatttttgtattaagatgttgctcatgtcatgaacatctgtctgcttgatcagGTCATAAAGCTCACTGACTTTGGTGTTCAAGGAGCAGAGGCCAACGACATATTGTACCTGAGGGATATTGAGGACGCTGACAAGTTGGTCGCGGCTATGC
















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|32923590|gb|CF028402.1|CF028402
EST:     CTGCAGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|211139780|gb|FL086553.1|FL086553
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|194716900|gb|FK934059.1|FK934059
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|16746145|gb|BM032575.1|BM032575
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|149089132|gb|EE178315.2|EE178315
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|71445023|gb|DR826073.1|DR826073
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|32920310|gb|CF025122.1|CF025122
EST:     CTGCAGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|84980717|gb|DW531066.1|DW531066
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|71422582|gb|DR805773.1|DR805773
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|32922417|gb|CF027229.1|CF027229
EST:     CTGCAGAAACCTTCACATATGAGACCTTGCTCATTGCTATTTTCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|19057725|gb|BM736392.1|BM736392
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|50327427|gb|CO522553.1|CO522553
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|76931161|gb|DV172672.1|DV172672
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|211139774|gb|FL086547.1|FL086547
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|148931363|gb|EC874265.2|EC874265
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|32923403|gb|CF028215.1|CF028215
EST:     CTGCAGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|32922136|gb|CF026948.1|CF026948
EST:     CTGCAGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|149111140|gb|EE294635.2|EE294635
EST:     CTGCGAAAACCTTCACATATGAAACCTTGCTCATTGCTACGAGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAAGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|71439293|gb|DR820343.1|DR820343
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|32922231|gb|CF027043.1|CF027043
EST:     CTGCAGAAACCTTCACATATGAGACCTTGCTCATTGCT-CGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|71298889|gb|DR785439.1|DR785439
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|94478914|gb|EB707872.1|EB707872
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|32923263|gb|CF028075.1|CF028075
EST:     CTGCAGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|148951661|gb|EC897406.2|EC897406
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|32921956|gb|CF026768.1|CF026768
EST:     CTGCAGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|32922199|gb|CF027011.1|CF027011
EST:     CTGCAGAAACCTTCACATATGAGACCTTGCTCATTGTTTCGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|32920482|gb|CF025294.1|CF025294
EST:     CTGCAGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|148939718|gb|EC884396.2|EC884396
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|211139777|gb|FL086550.1|FL086550
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAANGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|88751027|gb|DY535168.1|DY535168
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|211138837|gb|FL086538.1|FL086538
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACAT
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACT-GATTTTGGTGTTCAAGGAGCAGAATCCAACAACAT
EST: gi|211138840|gb|FL086541.1|FL086541
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|211138844|gb|FL086545.1|FL086545
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|149111386|gb|EE294890.2|EE294890
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|32922933|gb|CF027745.1|CF027745
EST:     CTGCAGAAACCTTCACATATGAGACCTTGCTCAGTG-NACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|32923287|gb|CF028099.1|CF028099
EST:     CTGCAGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|211139786|gb|FL086559.1|FL086559
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         NTCATAAAGCTCACTGGATTTTGGTGTTCAAGGAGCAGAATCCAACAACAT
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTG-ATTTTGGTGTTCAAGGAGCAGAATCCAACAACAT
EST: gi|211138839|gb|FL086540.1|FL086540
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACCTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACAT
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCAC-TGATTTTGGTGTTCAAGGAGCAGAATCCAACAACAT
EST: gi|149084652|gb|EE174137.2|EE174137
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|211138843|gb|FL086544.1|FL086544
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACT
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACT
EST: gi|148941238|gb|EC886132.2|EC886132
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|148936977|gb|EC881144.2|EC881144
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|211138838|gb|FL086539.1|FL086539
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCCACA-CATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|148940672|gb|EC885484.2|EC885484
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|32923539|gb|CF028351.1|CF028351
EST:     CTGCAGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|84980996|gb|DW531345.1|DW531345
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|211139779|gb|FL086552.1|FL086552
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAA
EST: gi|32923175|gb|CF027987.1|CF027987
EST:     CTGCAGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|148937253|gb|EC881434.2|EC881434
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|148932994|gb|EE285869.2|EE285869
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|18384055|gb|BM417255.1|BM417255
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|32922169|gb|CF026981.1|CF026981
EST:     CTGCAGAAACCTCCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|211139781|gb|FL086554.1|FL086554
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGGATTTTGGTGTTCAAGGAGCAAAAACCAACAACAT
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTG-ATTTTGGTGTTCAAGGAGCAGAATCCAACAACAT
EST: gi|33467502|gb|CF244551.1|CF244551
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|148934201|gb|EC878222.2|EC878222
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|211139784|gb|FL086557.1|FL086557
EST:     CTGCGGAAACCTTCACATATGAGAACTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTTGGTGT-CAAGGAGCAGAATCCA-CAACAT
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTT-GGTGTTCAAGGAGCAGAATCCAACAACAT
EST: gi|211139787|gb|FL086560.1|FL086560
EST:     CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGA
EST: gi|32923611|gb|CF028423.1|CF028423
EST:     CTGCAGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|32922528|gb|CF027340.1|CF027340
EST:     CTGCAGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
EST: gi|32920307|gb|CF025119.1|CF025119
EST:     CTGCAGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCG                         GTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA
genomic: CTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATA

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: 47 (upstream exon), 49 (downstream exon)
Score: 42

TACTGAGATTGTGAAGGCCGACCTTGCTTCAAAGACTCTGACCAGTGCAGCTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATATTGTATCTAAGGGACATTGCGGATGCCGACAAGTTGGTTGCAGCTATGC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 676

TACTGAGATTGTGAAGGCCGACCTTGCTTCAAAGACTCTGACCAGTGCAGCTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATATTGTATCTAAGGGACATTGCGGATGCCGACAAGTTGGTTGCAGCTATGC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 946

TACTGAGATTGTGAAGGCCGACCTTGCTTCAAAGACTCTGACCAGTGCAGCTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATATTGTATCTAAGGGACATTGCGGATGCCGACAAGTTGGTTGCAGCTATGC


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 369

TACTGAGATTGTGAAGGCCGACCTTGCTTCAAAGACTCTGACCAGTGCAGCTGCGGAAACCTTCACATATGAGACCTTGCTCATTGCTACGGGCTCCTCGgttagttctt ... tcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATATTGTATCTAAGGGACATTGCGGATGCCGACAAGTTGGTTGCAGCTATGC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgggaaaacttgttacctgggttgctcattatgtattctgtcttcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATATTGTATCTAAGGGACATTGCGGATGCCGACAAGTTGGTTGCAGCTATGC
                                     ttctgtcttc  CT-rich tract
                             attatgtatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagttcttactgaaattgttctccaaaaacatgttttcaatgggaaaacttgttacctgggttgctcattatgtattctgtcttcgtgttcagGTCATAAAGCTCACTGATTTTGGTGTTCAAGGAGCAGAATCCAACAACATATTGTATCTAAGGGACATTGCGGATGCCGACAAGTTGGTTGCAGCTATGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT