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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taccattatcgaatctcaatgtattgttcctttcttttgtctttcgtttcgggtttcgggtcatagcacgatggcactcagtctcgttaataacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTTTCACTGGGCTGAATAGCGAACAAGTCGCATTCATGAGGCAGGAATACCA

Basic information

species Zea mays
transcript GRMZM2G094712_T02
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G094712_T04 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os01g55540.2 (Oryza sativa), 3'ss of exon 10
taccattatcgaatctcaatgtattgttcctttcttttgtctttcgtttcgggtttcgggtcatagcacgatggcact-cagtctcgttaataacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTTTCACTGGGCTGAATAGCGAACAAGTCGCATTCATGAGGCAGGAATACCA
 |  | | |    || |  | | |   ||| |||| |     |     |  |||     |||| |         || |   | |  | ||| | | ||||| ||| ||||| || ||||| || ||||||||||| || || ||||| |||||||||||||| || || || ||||| || ||||||||||||||||||||
-aggagtttttcttccctttttctgaatccattctctatggctaaaagtgaggtacattgtcagaaatattaatcattgttgacatgataacatcatgcagAAACTCCTGGAGACTGGAGTCACATCATTAAGCAGATCGGAATGTTCACTTTCACTGGGCTCAACAGTGATCAAGTGGCTTTCATGAGGCAGGAATACCA

upper sequence: GRMZM2G094712_T04 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA04G08560.1 (Glycine max), 3'ss of exon 10
taccattatcgaatctcaatgtattgttcctttcttttgtctttcgtttcgggtttcgggt---catagcacgatggcactcagtctcgttaataacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTTTCACTGGGCTGAATAGCGAACAAGTCGCATTCATGAGGCAGGAATACCA
     || |    ||    | ||   |     ||| || | ||| |||| |  |||  | |     ||   |  |   | | | |     |   |  |  |||| || |||||||||||||| || || || ||||| ||||| |||||||||||||||||  |||||   ||||||||  | |||||||   | || |||||
---acttgtttgctcattctttaccatcttactctgttctttttagttttgtttttgtgatacatttactgcagttataataatttctcctttaactggtcagGCACACCTGGTGATTGGAGTCACATTATCAAGCAGATTGGAATGTTTACTTTCACTGGATTGAATGCGGAACAAGTTTCCTTCATGACTAAAGAGTACCA

upper sequence: GRMZM2G094712_T04 (Zea mays), 3'ss of exon 8
lower sequence: AT1G62800.2 (Arabidopsis thaliana), 3'ss of exon 10
-taccattatcgaatctcaatgtattgttcctttcttttgt-----ctttcgtttcgggtttcgggtcata---gcacga-tggcactcagtctcgttaataacgtg-------cagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTTTCACTGGGCTGAATAGCGAACAAGTCGCATTCATGAGGCAGGAATACCA
 | ||||| | |  |||   | | |  ||| ||| ||||||     ||||| | || | | | || ||||      |  | |     ||||     | || ||   |       ||||||| |||||||||||||| || || ||||| || ||||||||||||||||| || ||  ||| |   || |||||    || |||    | ||||| ||
gttccatt-tagtgtcttt-tctttccttcattttttttgttaaatctttcttctcagatat-ggatcatgcatatataagttttgttcaggaatataaaaaaaaagttttggtcagGAACACCTGGTGATTGGAGTCACATTATTAAACATATTGGGATGTTTACTTTTACCGGATTGAGTGAGGAGCAAGTTCGCTTGATGGCCAAAGAATATCA

upper sequence: GRMZM2G094712_T04 (Zea mays), 3'ss of exon 8
lower sequence: Vv11s0016g03720.t01 (Vitis vinifera), 3'ss of exon 10
taccattatcgaatctcaatgtattgttcctttcttttgtctttcgtttcgggtttcgggtcatagc-acgatggcactcagt-ctcgttaataacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTTTCACTGGGCTGAATAGCGAACAAGTCGCATTCATGAGGCAGGAATACCA
   | ||   |  | |  ||||| | |   |   |||     ||  |    |  || |  | | |     | | | | | | | ||| ||  ||    ||||| |||||||| || ||||| || || || ||||||||||| ||||| |||||||| ||||||||||  || |||||||| |||||||   ||||||| ||
--tcttttgtggttgttcatgtactttgaatgaatttccatgttaataattgtgtttgattaagaattgtgtttggatttatttctctttcctatttggcagGCACCCCTGGCGACTGGAGTCACATTATAAAGCAAATTGGAATGTTCACTTTCACAGGGCTGAATACTGAGCAAGTCGCCTTCATGACCAAGGAATATCA

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|67020983|gb|CO449732.1|CO449732
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32927305|gb|CF032117.1|CF032117
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGTAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|149072592|gb|EE286792.2|EE286792
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32927492|gb|CF032304.1|CF032304
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGTAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|31356689|gb|CD441046.1|CD441046
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|92088137|gb|EB484368.1|EB484368
EST:     TAGGATCATTAACATGAGGCAACANCTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGACTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|60341541|gb|DN208514.1|DN208514
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|7162311|gb|AW519918.1|AW519918
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|33942473|gb|CF349073.1|CF349073
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|78027140|gb|DV495527.1|DV495527
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32927574|gb|CF032386.1|CF032386
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGTAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32867607|gb|CF007289.1|CF007289
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|56382527|gb|CV985196.1|CV985196
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|4775842|gb|AI664847.1|AI664847
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|4874332|gb|AI673852.1|AI673852
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|78080376|gb|DV508788.1|DV508788
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|211187210|gb|FL054032.1|FL054032
EST:     TAGGATCATTAACATGAGGCAACAACTATTTGATGCTCTGAAATCCAGAG                         GAACCCCTGGAGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32934326|gb|CF039138.1|CF039138
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32835718|gb|CD975396.1|CD975396
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|12970347|gb|BG266938.1|BG266938
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32929180|gb|CF033992.1|CF033992
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32927870|gb|CF032682.1|CF032682
EST:     TAGGATCATTAACATGAGGCAACACCTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGTAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|38502478|gb|CF972338.1|CF972338
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|24767776|gb|CA402912.1|CA402912
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32837083|gb|CD976761.1|CD976761
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|24764022|gb|CA399191.1|CA399191
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|33095048|gb|CF055042.1|CF055042
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|31362360|gb|CD446717.1|CD446717
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32846172|gb|CD985853.1|CD985853
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|211132390|gb|FL440019.1|FL440019
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|211187208|gb|FL054030.1|FL054030
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32929191|gb|CF034003.1|CF034003
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|24764697|gb|CA399860.1|CA399860
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32928849|gb|CF033661.1|CF033661
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32833147|gb|CD972825.1|CD972825
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|211132391|gb|FL440020.1|FL440020
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|78080377|gb|DV508789.1|DV508789
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|4874452|gb|AI673972.1|AI673972
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32915489|gb|CF020301.1|CF020301
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32927161|gb|CF031973.1|CF031973
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGTAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32846059|gb|CD985740.1|CD985740
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|24767122|gb|CA402266.1|CA402266
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|5936779|gb|AW060047.1|AW060047
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|6918687|gb|AW400217.1|AW400217
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|24769848|gb|CA404977.1|CA404977
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|33102270|gb|CF062230.1|CF062230
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCACTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|4837574|gb|AI670664.1|AI670664
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|24769230|gb|CA404359.1|CA404359
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|10450878|gb|BE924802.1|BE924802
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32835738|gb|CD975416.1|CD975416
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32837197|gb|CD976875.1|CD976875
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|61118378|gb|DN559339.1|DN559339
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|4775838|gb|AI664843.1|AI664843
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32929220|gb|CF034032.1|CF034032
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|4885950|gb|AI677070.1|AI677070
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGA-Ggtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACT
EST: gi|6564018|gb|AW231640.1|AW231640
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|20507971|gb|BQ279844.1|BQ279844
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32927179|gb|CF031991.1|CF031991
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGTAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|33100553|gb|CF060513.1|CF060513
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32933396|gb|CF038208.1|CF038208
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32927057|gb|CF031869.1|CF031869
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGTAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|67038272|gb|CO464602.1|CO464602
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32930921|gb|CF035733.1|CF035733
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|4874418|gb|AI673938.1|AI673938
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|33100547|gb|CF060507.1|CF060507
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|32867606|gb|CF007288.1|CF007288
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
EST: gi|31360460|gb|CD444817.1|CD444817
EST:     TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAG                         GAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT
genomic: TAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTT

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: 372

CGAGATGTTCAACGAATGGACTCTGGAACTGAAGGCCATGGCTGATAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTTTCACTGGGCTGAATAGCGAACAAGTCGCATTCATGAGGCAGGAATACCA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 635

CGAGATGTTCAACGAATGGACTCTGGAACTGAAGGCCATGGCTGATAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTTTCACTGGGCTGAATAGCGAACAAGTCGCATTCATGAGGCAGGAATACCA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 677

CGAGATGTTCAACGAATGGACTCTGGAACTGAAGGCCATGGCTGATAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTTTCACTGGGCTGAATAGCGAACAAGTCGCATTCATGAGGCAGGAATACCA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 860

CGAGATGTTCAACGAATGGACTCTGGAACTGAAGGCCATGGCTGATAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgttt ... taacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTTTCACTGGGCTGAATAGCGAACAAGTCGCATTCATGAGGCAGGAATACCA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttcgggtttcgggtcatagcacgatggcactcagtctcgttaataacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTTTCACTGGGCTGAATAGCGAACAAGTCGCATTCATGAGGCAGGAATACCA
                                          taataac  putative branch site (score: 860)
                                         ttaataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taccattatcgaatctcaatgtattgttcctttcttttgtctttcgtttcgggtttcgggtcatagcacgatggcactcagtctcgttaataacgtgcagGAACCCCTGGTGATTGGAGCCATATCATTAAGCAAATTGGGATGTTTACTTTCACTGGGCTGAATAGCGAACAAGTCGCATTCATGAGGCAGGAATACCA

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