Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGGGGAGGAACAGCATTGGATGCCTGTTCTGGCTTTTGGCCAGGATGGTTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgctagcttatgatgtcgttcaaaatgacattggagatgtgatgagtccagacttataaccttggcattcttatatgataatgttgtttgcag

Basic information

species Zea mays
transcript GRMZM2G126821_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G126821_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g08440.1 (Oryza sativa), 5'ss of exon 3
CAAGGGGAGGAACAGCATTGGATGCCTGTTCTGGCTTTTGGCCAGGATGGTTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgctagcttatgatgtc--gttcaaaatgacattggagatgtg---atgagtccagacttataaccttggcattcttata---tgataatgttgtttgcag
||||||||||||||||||||| |||||||||||||| ||||| ||||||||||||||||||||||| |||||||||||||| ||||||||||| || ||||||||  |     |||| |  ||  |  ||   ||||||||||  ||     ||||    |   | ||| |||| | || ||||||   |||  ||||  |||||||
CAAGGGGAGGAACAGCATTGGGTGCCTGTTCTGGCTCTTGGCTAGGATGGTTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg---ttattacttcaagaacacgttgacattggaagtgcattcatgaagataatttcatatcctttgtatgcttatacactgagtatgtcttttgcag

upper sequence: GRMZM2G126821_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA15G42150.1 (Glycine max), 5'ss of exon 3
CAAGGGGAGGAACAGCATTGGATGCCTGTTCTGGCTTTTGGCCAGGATGGTTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgctagcttatgatgtcgttcaaaatgacattggagatgtgatgagtccagacttataaccttggcattcttatatgataatgttgtttgcag----------------------------------------------------------------
 ||||||| | | |||||||| || || |||||||| || || |||||||| ||||||||| |||| ||||| |  || || ||||||||||| || ||||||  || || | |||||||    ||    ||  |  | |||| |  || ||||      ||  |  |  | |||||| |  || | |  | |     |                                                                
TAAGGGGAAGCATAGCATTGGTTGTCTCTTCTGGCTATTAGCTAGGATGGTACTGCAGATGCGGGGTACTATTCGTCCAGGTCACAAGTGGGATGTAATGgta-aatacttg-ttatgattgtttt----atagctcttgagaagatat-agtctgttagta-gatgtctgtattcttgtgagaaattagtatcattgggtgggggggggggggctgtaagttcttagattagtatctaattatctcaagttttgttatgcag

upper sequence: GRMZM2G126821_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G17000.1 (Glycine max), 5'ss of exon 3
CAAGGGGAGGAACAGCATTGGATGCCTGTTCTGGCTTTTGGCCAGGATGGTTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgctagcttatgatgtcgttcaaaatgacattggagatgtgatgagtcc------agact--tataaccttggca---ttcttatatgataatgttgtttgcag----------------------------
 ||||||| | | |||||||| || || || ||||| || || |||||||| ||||||||| |||||||||| |  || |||||||||||||| || ||||||  || || | |  |  |   |   | ||||   ||  | ||||    | |||      | | |  ||| |  ||||     ||| |  | | |  |    ||   |                             
TAAGGGGAAGCATAGCATTGGTTGTCTCTTTTGGCTATTAGCAAGGATGGTACTGCAGATGCGGGGCACTATTCGTCCAGGGCACAAGTGGGATGTAATGgtaaaatacttgttcctttt-cggaatagaatggtgttttatatgtctgtattcctgtagaaaattagtattattttggggagtttcctgcaagctcttaacattaataactaaatatctcaaatttttcttatgcag

upper sequence: GRMZM2G126821_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv09s0002g00610.t01 (Vitis vinifera), 5'ss of exon 3
CAAGGGGAGGAACAGCATTGGATGCCTGTTCTGGCTTTTGGCCAGGATGGTTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtat-gatgctagcttatgatgtcg--ttcaaaatgacattggagatgtgatgagtccagacttat--------aaccttggcattcttatatgataatgttgtttgcag------------------------------------------------------------------------------------
|||||| | | |||||||||| || ||||||||||| ||||| |||||||||||||||||| |  |||||||    || || ||||||||||| || ||||||  |||   ||   |  || | |  ||  | |   |||     ||    ||  ||   | | |         ||  |     || ||  |   || ||  |||| ||                                                                                     
CAAGGGAAAGCACAGCATTGGCTGTCTGTTCTGGCTGTTGGCAAGGATGGTTCTGCAGATGCGTCGCACTATTGCTCCCGGACACAAGTGGGATGTGATGgtaaagatatcagaaaaccattttgggttttatagttcatacagtattatttgcttctgaattgacgcatgacgaatttacaagtttttgcactgtactgaggtttacatttttgagtttgatgatttagcttgccccctggtggatgattacttgatgattttgacttaccatgatctttcctcgatatgtag

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|31355138|gb|CD439495.1|CD439495
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|211398272|gb|FL293836.1|FL293836
EST:     TTGCAAATGAGGGGCACTATTCCTCCCTGGGCACCAAGTGGGAGGGCATG                         GGGGGATTTGTTCTTTCTCCGGGGACCCACAAGGAAGCAAAGGA
genomic: T-GCAGATGAGGGGCACTAT-CCTCCCTGGGCAC-AAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGG-ATTTGTTCTT-CTACAGGGACCCAGA-GGAAGCAAAGGA
EST: gi|33101681|gb|CF061641.1|CF061641
EST:     TCTGCAGATGAGGGGCACTATCCTCCCTGGGCACCAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCGGGAGGAG
genomic: TCTGCAGATGAGGGGCACTATCCTCCCTGGGCAC-AAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|30306590|gb|CD001263.1|CD001263
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|31349731|gb|CD434088.1|CD434088
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|32850981|gb|CD990662.1|CD990662
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTTGATCTGTTCTTCTACAGAGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|30307128|gb|CD001801.1|CD001801
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|211208070|gb|FL437181.1|FL437181
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|6538929|gb|AW225068.1|AW225068
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|148940170|gb|EC884930.2|EC884930
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|31362453|gb|CD446810.1|CD446810
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|110481295|gb|EE011014.1|EE011014
EST:     TCTGCAGATGAGGGGCACTATCCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTTTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TCTGCAGATGAGGGGCACTAT-CCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|31355003|gb|CD439360.1|CD439360
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGNGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|149014518|gb|EE044147.2|EE044147
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|5510808|gb|AI857192.1|AI857192
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|211518207|gb|FL037244.1|FL037244
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|30307129|gb|CD001802.1|CD001802
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|87151812|gb|DY396601.1|DY396601
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAAGTCATG                         GTGGATTTGTTCTTCTACA
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACA
EST: gi|211540690|gb|FL218505.1|FL218505
EST:     TCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATNG                         GTGGGTTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGA
genomic: TCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCAT-Ggtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGA
EST: gi|148965698|gb|EE016561.2|EE016561
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTA
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTA
EST: gi|30032245|gb|CB834096.1|CB834096
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|61118621|gb|DN559582.1|DN559582
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|32849968|gb|CD989649.1|CD989649
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTTGATCTGTTCTTCTACAGAGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|31353313|gb|CD437670.1|CD437670
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|18964153|gb|BM660841.1|BM660841
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GNGGATTGGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|31353712|gb|CD438069.1|CD438069
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|148959151|gb|EE010618.2|EE010618
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAAGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|60351487|gb|DN218460.1|DN218460
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|149014517|gb|EE044146.2|EE044146
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|67037375|gb|CO464213.1|CO464213
EST:     TTCTGCAGATGANGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTTGATCTGNTCTTCTACAGAGACCCAGAGGAAGCAAAGGAGCAGGGAG-A
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGG-AGGA
EST: gi|211211019|gb|FL456131.1|FL456131
EST:     TTCTGCARATGAGGGGCACTATCCTCCCTGGGCMCAAGTGGGAGGTCATG                         GTGGATTTGTTYTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|31355252|gb|CD439609.1|CD439609
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGNGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|19770436|gb|BQ035157.1|BQ035157
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|28987078|gb|CB351453.1|CB351453
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|31353393|gb|CD437750.1|CD437750
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGNGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|29543918|gb|CB604298.1|CB604298
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|149081112|gb|EE170216.2|EE170216
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|24768430|gb|CA403559.1|CA403559
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|148981763|gb|EE027869.2|EE027869
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAG
EST: gi|149095196|gb|EE180817.2|EE180817
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|60351254|gb|DN218227.1|DN218227
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|67028726|gb|CO457475.1|CO457475
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGNGCACAAGTGGGAGGTCATG                         GTTGATCTGTTCTTCTACAGAGACCCAGAGGAAGCAAAGGAGCANGGAGGA
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCA-GGAGGA
EST: gi|149108470|gb|EE292795.2|EE292795
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|88757934|gb|DY542075.1|DY542075
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|31353757|gb|CD438114.1|CD438114
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|12972713|gb|BG268119.1|BG268119
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCCAGAGGAAGCAAAGGAGCAGGAGGA
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCC-AGAGGAAGCAAAGGAGCAGGAGGA
EST: gi|21330457|gb|BQ485838.1|BQ485838
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCA
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCA
EST: gi|31355761|gb|CD440118.1|CD440118
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGNGCACAAGTGGGAGGTCATG                         GTGGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGA
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGG-ATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGA
EST: gi|83279186|gb|DV943194.1|DV943194
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTAGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG
EST: gi|149082244|gb|EE171430.2|EE171430
EST:     TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATG                         GTGGATTTGTTCTTCTACAGGGACCCAGAGGGAGCAAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAG

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: 749

CAAGGGGAGGAACAGCATTGGATGCCTGTTCTGGCTTTTGGCCAGGATGGTTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAGGAAGCTGCTGTTGCCCCTGAGTTTGCCGCAATCACTGATTACCAAGGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 761

CAAGGGGAGGAACAGCATTGGATGCCTGTTCTGGCTTTTGGCCAGGATGGTTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAGGAAGCTGCTGTTGCCCCTGAGTTTGCCGCAATCACTGATTACCAAGGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 728

CAAGGGGAGGAACAGCATTGGATGCCTGTTCTGGCTTTTGGCCAGGATGGTTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAGGAAGCTGCTGTTGCCCCTGAGTTTGCCGCAATCACTGATTACCAAGGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 596

CAAGGGGAGGAACAGCATTGGATGCCTGTTCTGGCTTTTGGCCAGGATGGTTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgct ... ttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAGGAAGCTGCTGTTGCCCCTGAGTTTGCCGCAATCACTGATTACCAAGGAG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAAGGGGAGGAACAGCATTGGATGCCTGTTCTGGCTTTTGGCCAGGATGGTTCTGCAGATGAGGGGCACTATCCTCCCTGGGCACAAGTGGGAGGTCATGgtatgatgctagcttatgatgtcgttcaaaatgacattggagatgtgatgagtccagacttataaccttggcattcttatatgataatgttgtttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG