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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagggccagctactcatgcagttaattattggagtcaactgtttatttacgatctcactgatgattatgagctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAGAGATTTTAAAGTTATCTGGTGGAG

Basic information

species Oryza sativa
transcript LOC_Os01g36930.1
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g36930.1 (Oryza sativa), 3'ss of exon 16
lower sequence: GRMZM2G028733_T02 (Zea mays), 3'ss of exon 16
gtagggccagctactcatgcagttaattattggagtcaactgttt-attt---acgatctcactgatgattatgagcttt-----ttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAGAGATTTTAAAGTTATCTGGTGGAG
||  |  || ||| |  | ||| | |||        ||||||||| ||||   ||    |   |  |||   |     ||     | ||| |||||||| || |||||||||||||| || | ||| |||||||| ||||| ||||| ||  | ||||||||||
gtcag-tcaactagtattacagctcatttactataacaactgtttcattttatacaggttagttactgaaattccatattaaccatcagGAAAATGGATCGAGTTTGATGATGACAATCCGAACATTCGCAAGGATGAAGACATTTTGAAACTTTCTGGTGGAG

upper sequence: LOC_Os01g36930.1 (Oryza sativa), 3'ss of exon 16
lower sequence: GRMZM2G017086_T03 (Zea mays), 3'ss of exon 16
gtagggccagctactcatgcag-ttaattattggagtcaactgttta--tttacgatc--tcactgatgattatgagc--tttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAGAGATTTTAAAGTTATCTGGTGGAG
||  |  ||   | |  | ||| ||| |||  | | ||||||||||   ||||  ||   |||||||   ||   | |       ||| |||||||| || ||||||||||||||||| | ||| |||||||||||||| ||||| ||  ||||||||||||
gtcag-tcaatcagtattacagcttagttacggtaatcaactgtttcactttattattagtcactgaaatttcatatcgaccaccagGAAAATGGATCGAGTTTGATGATGACAACCCAAACATCCGCAAGGAGGAAGACATTTTGAAACTATCTGGTGGAG
















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|88906291|gb|CI375363.1|CI375363
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|86873220|gb|CI328600.1|CI328600
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|88484191|gb|CI421462.1|CI421462
EST:     ATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATNATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: ATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|89196124|gb|CI395542.1|CI395542
EST:     AGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: AGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|33803665|gb|CF327708.1|CF327708
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|88901805|gb|CI374413.1|CI374413
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGG-AG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|86251819|gb|CI019011.1|CI019011
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCATGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|88253087|gb|CI351713.1|CI351713
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|88841750|gb|CI081006.1|CI081006
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACA                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|86895686|gb|CI315973.1|CI315973
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|88842004|gb|CI081260.1|CI081260
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|11172378|gb|AU164255.1|AU164255
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|29615419|gb|CB620431.1|CB620431
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|22306033|gb|BQ907255.1|BQ907255
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|88259760|gb|CI364053.1|CI364053
EST:     ATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: ATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|2798032|gb|AA751326.1|AA751326
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCAT
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCAT
EST: gi|58694158|gb|CK082845.1|CK082845
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCATGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|88264896|gb|CI367547.1|CI367547
EST:     TGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: TGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|88835245|gb|CI370548.1|CI370548
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|29646292|gb|CB651299.1|CB651299
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|88483824|gb|CI421095.1|CI421095
EST:     GGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|88970083|gb|CI383585.1|CI383585
EST:     CCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: CCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|5002870|gb|AU067979.1|AU067979
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|8527359|gb|AU092174.1|AU092174
EST:     CATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: CATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|86870576|gb|CI320672.1|CI320672
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCT-GGTTAACCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACCCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|88515296|gb|CI442950.1|CI442950
EST:     CTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: CTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|29674106|gb|CB670381.1|CB670381
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|88971857|gb|CI390449.1|CI390449
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|29679501|gb|CB675776.1|CB675776
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|88455606|gb|CI521826.1|CI521826
EST:     GGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|88959994|gb|CI381872.1|CI381872
EST:     GGCTGGG-TAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|88289462|gb|CI555824.1|CI555824
EST:     GGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|3766829|gb|AU030939.1|AU030939
EST:     AGAAGTGCAGACTCCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGGATTGAATTTGATGATGGACAACCCTAGCATACGCAAGGAGGA
genomic: AGAAGTGCAGACT-CAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAAT-GGATTGAATTTGATGAT-GACAACCCTAGCATACGCAAGGAGGA
EST: gi|29667425|gb|CB663700.1|CB663700
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|86896861|gb|CI317365.1|CI317365
EST:     GAGAAGTGCAGTCTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|86429804|gb|CI082227.1|CI082227
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|27920955|gb|CB096763.1|CB096763
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAGTTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|24208654|gb|AU225681.1|AU225681
EST:     GAGGAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAAGGAGGAA
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGC-AAGGAGGAA
EST: gi|88970237|gb|CI383739.1|CI383739
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|88831197|gb|CI082007.1|CI082007
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|29615344|gb|CB620356.1|CB620356
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|86864564|gb|CI344162.1|CI344162
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|88846680|gb|CI373448.1|CI373448
EST:     GCTGGGTTAAGCCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GCTGGGTTAAG-CAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
EST: gi|29689096|gb|CB685371.1|CB685371
EST:     GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACG                         GGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG
genomic: GAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAG

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: 36 (upstream exon), 69 (downstream exon)
Score: 40

AAACATTTGACTGGCATCTATGATTTAATTGCTGTTTTGACGCACAAAGGGAGAAGTGCAGACTCAGGCCATTATGTTGGCTGGGTTAAGCAAGATGACGgtagggccag ... agctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAGAGATTTTAAAGTTATCTGGTGGAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attattggagtcaactgtttatttacgatctcactgatgattatgagctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAGAGATTTTAAAGTTATCTGGTGGAG
                               cactgat  putative branch site (score: 40)
                                               cttttt  putative PPT
               tgtttattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagggccagctactcatgcagttaattattggagtcaactgtttatttacgatctcactgatgattatgagctttttagGGAAATGGATTGAATTTGATGATGACAACCCTAGCATACGCAAGGAGGAAGAGATTTTAAAGTTATCTGGTGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG