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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattctatttttccaaactatacatgcaataggtatttgttcaaacaagcgataacctctacatattcattattttgatttttgccagttccatata...

Basic information

species Oryza sativa
transcript LOC_Os03g38960.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g38960.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G013600_T01 (Zea mays), 5'ss of exon 4
CATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaa-ttctatttttc-caaactatacatgc--aataggtatttgttcaaacaagcgataac-ctctacatattcattattttgatttttgccagttccatata
||||||||||||||| |||||||||||||||||||||||||| |||||||||||||| || |||||||      || || ||    ||| || | |  |||| |  | |  || |  | | | ||||| | ||| | |        ||         
CATGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAGgtaaagttatattttttgttttctgtatattttaaattggaactc-ttcagattaacattagcgtttttcttattcttcattctaacgaaaaatagccttt----

upper sequence: LOC_Os03g38960.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G086904_T01 (Zea mays), 5'ss of exon 4
CATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattctatttttccaaactatacatgcaataggtatttgttcaaacaagcgataacctctacatattcattattttgatttttgccagttccatata------
||||||||||||||| ||||||||||||||||| |||||||| |||||||||||||||  | ||||||     ||||  |  ||| || | |  |||| |  |    || ||| |   | |||||| |    || |     |  |    |||      
CATGAATGCTCCAGTCATGGTTGAGCTTGAGGGTGAAACTGACCCTCTTGAGgtaaatatt-tttttctg---tatattttaaattggaactc-ttcagattaaaattagcctttttttcttcattctaactatcta-ataaaatttgaatagtcttt

upper sequence: LOC_Os03g38960.2 (Oryza sativa), 5'ss of exon 3
lower sequence: AT2G04630.1 (Arabidopsis thaliana), 5'ss of exon 4
CATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaa-attctatttttccaaactatacatgcaataggtatttgttcaaacaagcgataacctctacatattcatt-attttgatttttgc-cagttccatata--
|||||||||||| |||||||||||| | ||||| || |||||||| ||||||||       | ||  | |    | |   |   ||    ||||||   |  ||  | | |  | || ||   ||||  | ||| || |||     ||     ||  
CATGAATGCTCCTGTTATGGTTGAGTTGGAGGGTGAGACTGATCCACTTGAGgtgttgccttcttccttcttgttgtgtttttcatg---atttgtc--agtaaatgttgatatgtatatgaacatttgtgttgtttattgtatgatttggcttaag

upper sequence: LOC_Os03g38960.2 (Oryza sativa), 5'ss of exon 3
lower sequence: AT5G51940.1 (Arabidopsis thaliana), 5'ss of exon 4
CATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattctatt-tttccaaactatacatgcaataggtatttgttcaaacaagcgataacctctacatattcattattttgatttttgccagttccatata
|||||||||||| || ||||||||||| ||||| || |||||||| ||||||||    |    |   | |    | |   |     | || | |||   |  || |  | |  |  |||| |    || |||  | |      | | ||    
CATGAATGCTCCTGTCATGGTTGAGCTAGAGGGTGAGACTGATCCACTTGAGgtgtgcttacctaccttcttgttgttggtttttgaagt-tatgtctcagtaaac--ttatatgaacatttgagctaatttattatgatttggattcag---

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|218495985|gb|FG958579.1|FG958579
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACCATTACGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|88376199|gb|CI533101.1|CI533101
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|88215899|gb|CI215748.1|CI215748
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCCCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|86506229|gb|CI148862.1|CI148862
EST:     TGAATGCTCCAGTTATGCTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCGTGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|88727042|gb|CI750697.1|CI750697
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGC
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGC
EST: gi|218497334|gb|FG955294.1|FG955294
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAACGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|218499405|gb|FG963729.1|FG963729
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|88517263|gb|CI444917.1|CI444917
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|163927473|gb|EG713889.1|EG713889
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCG
EST: gi|58681466|gb|CK070153.1|CK070153
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|38481397|gb|CF965486.1|CF965486
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|218496317|gb|FG954187.1|FG954187
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|25798016|gb|CA753977.1|CA753977
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|218487224|gb|FG954426.1|FG954426
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|218491289|gb|FG948708.1|FG948708
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|86416666|gb|CI030677.1|CI030677
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|86536627|gb|CI176833.1|CI176833
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|86904845|gb|CI310638.1|CI310638
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCA
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCA
EST: gi|58600678|gb|CK011206.1|CK011206
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCC
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCC
EST: gi|218490022|gb|FG965705.1|FG965705
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|88456045|gb|CI567761.1|CI567761
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAACATCC-ATTCACAATTACGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|88216290|gb|CI216139.1|CI216139
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|163928871|gb|EG711933.1|EG711933
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|218498533|gb|FG957594.1|FG957594
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|86507172|gb|CI149805.1|CI149805
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|88325209|gb|CI646631.1|CI646631
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAA
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAA
EST: gi|163917777|gb|EG711299.1|EG711299
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|88518337|gb|CI445991.1|CI445991
EST:     ACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: ACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|218484046|gb|FG946740.1|FG946740
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|88907433|gb|CI090227.1|CI090227
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|88302670|gb|CI668516.1|CI668516
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGAT
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGAT
EST: gi|58686251|gb|CK074938.1|CK074938
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|163920983|gb|EG710396.1|EG710396
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|88289429|gb|CI555791.1|CI555791
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|88323979|gb|CI561388.1|CI561388
EST:     ATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: ATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|38468521|gb|CF952652.1|CF952652
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
EST: gi|58602936|gb|CK013464.1|CK013464
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGGCATGAAAGAGCTGAGAGCACGCAA
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAA
EST: gi|86911562|gb|CI296648.1|CI296648
EST:     TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG                         ATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG
genomic: TGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGG

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: 75 (upstream exon), 34 (downstream exon)
Score: 111

CATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattcta ... tgcaaattagATTGCCATGAAAGAGCTGAGAGCACGCAAGATCCCATTCACAATTAGGCGGTACTTACCTGACGGAAG




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAGgtaaattctatttttccaaactatacatgcaataggtatttgttcaaacaagcgataacctctacatattcattattttgatttttgccagttccatata

- - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - -  GGAGAA