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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagccatgccgcctagactaggcattccgtcgagcacgaccgtcacttgttgcttgcttgcgcttttcgctgacaagtggccgcccccccttgcttttcttttgtgtgtctgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCCACGGCGACGCGGAGGACCGGCTCGTGCCCACGGTGCTTAGCGGCTTCGA

Basic information

species Zea mays
transcript GRMZM2G003565_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G003565_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g35570.2 (Oryza sativa), 3'ss of exon 1
gtaagc--catgccgcctagactaggcattccgtcgagcacgaccgtcacttgttgcttgcttgcgcttttcgctga-caagtggccgcccccccttgcttttcttttgtgtgtctgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCCACGGCGACGCGGAGGACCGGCTCGTGCCCACGGTGCTTAGCGGCTTCGA
||||||  | | | |    |   | ||||| |||||| | |               |||||  |||||| |  || | |  | |   |||      |  | || || | | |  | | ||  ||||||||||||| |||||||||||||| || || ||||||||||||||||| ||||| ||||||||||||||||| ||||| |||||||| |||||||||||
gtaagcgtccttcggggcgggggaagcatttcgtcgaacgc---------------cttgccggcgcttctatctaagcgggcgtttgcctttttcttttctttttcttttttcccgttttgcagCGGGCAATGTGCTGTGCTCGTGGGGGAGAGGGGAGGACGGGCAGCTCGGGCACGGGGACGCGGAGGACCGGCTGGTGCCGACGGTGCTGAGCGGCTTCGA

upper sequence: GRMZM2G003565_T03 (Zea mays), 3'ss of exon 1
lower sequence: EFJ35396 (Selaginella moellendorffii), 3'ss of exon 1
gtaagccatgccgcctagactaggcattccgtcgagcacgaccgtcacttgttgcttgcttgcgcttttcgctgacaagtggccgcccccccttgcttttcttttgtgtgtctgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCCACGGCGACGCGGAGGACCGGCTCGTGCCCACGGTGCTTAGCGGCTTCGA
                                                                   |  ||   ||||    |  | | | |  ||   || |   |     |  ||| ||| ||| | ||  |||||||||  ||  ||||||||||||||||||| || ||||| || |||||||| |||| | ||||   | |  |  | |   || |
------------------------------------------------------------------gtaagcaagcaagcaagcatctctcgtgtctagactgtcacgctgtgggctgc-agCTGGCCAAGTGGTGTGCTCGTTTGGGCGGGGCGAGGACGGGCAGCTGGGTCACGGAGATGCGGAGGATCGGCACTTGCCGCGGATCATCGGTGCGCTCAA

upper sequence: GRMZM2G003565_T03 (Zea mays), 3'ss of exon 1
lower sequence: EFJ17371 (Selaginella moellendorffii), 3'ss of exon 1
gtaagccatgccgcctagactaggcattccgtcgagcacgaccgtcacttgttgcttgcttgcgcttttcgctgacaagtggccgcccccccttgcttttcttttgtgtgtctgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCCACGGCGACGCGGAGGACCGGCTCGTGCCCACGGTGCTTAGCGGCTTCGA
                                                                      |    ||||    |  | | | |  ||    | |   |     |  ||| ||| ||| | ||  |||||||||  ||  ||||||||||||||||||| || ||||| || |||||||| |||||| ||||   | |  |  | |   || |
----------------------------------------------------------------------gtaagcaagcaagcatctctcgtgtctagattgtcacgctgtgggctgc-agCCGGCCAAGTGGTGTGCTCGTTTGGGCGGGGCGAGGACGGGCAGCTGGGTCACGGAGATGCGGAGGATCGGCTCTTGCCGCGGATCATCGGTGCGCTCAA

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|211087165|gb|FL255708.1|FL255708
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211476178|gb|FL255698.1|FL255698
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211087166|gb|FL255709.1|FL255709
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211087164|gb|FL255707.1|FL255707
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211087173|gb|FL255716.1|FL255716
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211476171|gb|FL255691.1|FL255691
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211473659|gb|FL255683.1|FL255683
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211089615|gb|FL255722.1|FL255722
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|93284107|gb|EB676371.1|EB676371
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|78087016|gb|DV515409.1|DV515409
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211089610|gb|FL255717.1|FL255717
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|148935778|gb|EC879820.2|EC879820
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211087162|gb|FL255705.1|FL255705
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211087160|gb|FL255703.1|FL255703
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211471124|gb|FL255668.1|FL255668
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211471130|gb|FL255674.1|FL255674
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211473652|gb|FL255676.1|FL255676
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|76935832|gb|DV174484.1|DV174484
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211473655|gb|FL255679.1|FL255679
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211087168|gb|FL255711.1|FL255711
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211471120|gb|FL255664.1|FL255664
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211476182|gb|FL255702.1|FL255702
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211476175|gb|FL255695.1|FL255695
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211471117|gb|FL255661.1|FL255661
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|50339533|gb|CO534659.1|CO534659
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211476169|gb|FL255689.1|FL255689
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211471128|gb|FL255672.1|FL255672
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211087171|gb|FL255714.1|FL255714
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211473662|gb|FL255686.1|FL255686
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|71446512|gb|DR827562.1|DR827562
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211473660|gb|FL255684.1|FL255684
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211471122|gb|FL255666.1|FL255666
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|78082974|gb|DV511367.1|DV511367
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211473663|gb|FL255687.1|FL255687
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
EST: gi|211471123|gb|FL255667.1|FL255667
EST:     GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCA                         CGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC
genomic: GACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCC

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: 228

CTGGTCGAAGAGATGGACTCGGTCATGGCCGCCCCCGACTCGCCGCCGCAGACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCCACGGCGACGCGGAGGACCGGCTCGTGCCCACGGTGCTTAGCGGCTTCGA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 143

CTGGTCGAAGAGATGGACTCGGTCATGGCCGCCCCCGACTCGCCGCCGCAGACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCCACGGCGACGCGGAGGACCGGCTCGTGCCCACGGTGCTTAGCGGCTTCGA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 119

CTGGTCGAAGAGATGGACTCGGTCATGGCCGCCCCCGACTCGCCGCCGCAGACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCCACGGCGACGCGGAGGACCGGCTCGTGCCCACGGTGCTTAGCGGCTTCGA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 244

CTGGTCGAAGAGATGGACTCGGTCATGGCCGCCCCCGACTCGCCGCCGCAGACTGTCGTGCTCGTCTCTGCCGGCGCCAGCCACTCCGTCGCGCTCCTCAgtaagccatg ... tgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCCACGGCGACGCGGAGGACCGGCTCGTGCCCACGGTGCTTAGCGGCTTCGA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcgctgacaagtggccgcccccccttgcttttcttttgtgtgtctgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCCACGGCGACGCGGAGGACCGGCTCGTGCCCACGGTGCTTAGCGGCTTCGA
  cgctgac  putative branch site (score: 244)
                  cccccccttgcttttc  putative PPT
                             ttttctttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagccatgccgcctagactaggcattccgtcgagcacgaccgtcacttgttgcttgcttgcgcttttcgctgacaagtggccgcccccccttgcttttcttttgtgtgtctgcttgccagCGGGCAATGTCCTGTGCTCGTGGGGCAGGGGCGAGGACGGGCAGCTCGGCCACGGCGACGCGGAGGACCGGCTCGTGCCCACGGTGCTTAGCGGCTTCGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA