Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
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 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtatccggatgtcatcaccattacttacatttcttgttgtagctttatatgaagattttgatatgctcgtatatatcatactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGCTATCGATACG

Basic information

species Zea mays
transcript GRMZM2G467086_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G467086_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os12g01430.2 (Oryza sativa), 3'ss of exon 3
gtagtatccggatgtcatcaccattactt-acatttct-tgttgtagctttatatgaagattttga-----tatgctcgtatatatcatactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGCTATCGATACG
||||| |||  ||   ||  |    |||| | | || |   |  |  ||   ||||     | |||     | |  |   ||||||   |||| |||  | |||||||||||||| ||||||||||| || ||||||||||||| ||| |  || |||
gtagtctcctcatccaatggcttgcactttatacttatacatgatgactgcctatgcttgatatgagctttttttttgccatatattccactg-cagATTATTTCGAGAATTCGAAGAGCATGATTTCGCCAGGACAGGAAGTATTGCGACAGAAACG

upper sequence: GRMZM2G467086_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g01420.1 (Oryza sativa), 3'ss of exon 4
gtagtatccggatgtcatcaccattactt-acatttct-tgttgtagctttatatgaa-gattttgatatgctcgt---atatatcatactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGCTATCGATACG
||||| |||  ||   ||  |    |||| | | || |   |  |  ||   ||||   ||| |    ||  |  |   ||||||   |||| |||  | |||||||||||||| ||||||||||| || ||||||||||||| ||  |  || |||
gtagtctcctcatccaatggcttgcactttatacttatacatgatgactgcctatgcttgatatgagcatttttttgccatatattccactg-cagATTATTTCGAGAATTCGAAGAGCATGATTTCGCCAGGACAGGAAGTATTGTGACAGAAACG
















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|21891514|gb|BQ744727.1|BQ744727
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|26559664|gb|CA831899.1|CA831899
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|149010282|gb|EE042111.2|EE042111
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|60347115|gb|DN214088.1|DN214088
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|26558517|gb|CA830752.1|CA830752
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|22133771|gb|BQ833893.1|BQ833893
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|67015514|gb|CO444263.1|CO444263
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|20802773|gb|BQ293823.1|BQ293823
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|71441332|gb|DR822382.1|DR822382
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|37397689|gb|CF636152.1|CF636152
EST:     GGCAATTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|40337158|gb|CK371228.1|CK371228
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|5499042|gb|AI854909.1|AI854909
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|30088302|gb|CB886507.1|CB886507
EST:     GGCAACTCTGGTCTGTTATTCNCCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|71434423|gb|DR815473.1|DR815473
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|71441331|gb|DR822381.1|DR822381
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|71447892|gb|DR828942.1|DR828942
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|5439234|gb|AI820155.1|AI820155
EST:     GGCAACTCTGGTCTGTTATTCNCCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|5895917|gb|AW037163.1|AW037163
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|71322698|gb|DR798027.1|DR798027
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|78544743|gb|DV622241.1|DV622241
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|211520202|gb|FL010171.1|FL010171
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|29130506|gb|CB381210.1|CB381210
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|22819557|gb|BU499647.1|BU499647
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|22545521|gb|BU097880.1|BU097880
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|67020213|gb|CO448962.1|CO448962
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|120480859|gb|EH211066.1|EH211066
EST:     GGCAAYTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGY
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|101383868|gb|EB813989.1|EB813989
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|60399755|gb|DN232565.1|DN232565
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|20301485|gb|BQ164428.1|BQ164428
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|148969444|gb|EE020248.2|EE020248
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|78026443|gb|DV494830.1|DV494830
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|5398724|gb|AI812189.1|AI812189
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|28987333|gb|CB351581.1|CB351581
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|5108236|gb|AI739949.1|AI739949
EST:     ATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: ATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|149015123|gb|EE044887.2|EE044887
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|87156128|gb|DY400917.1|DY400917
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|22549184|gb|BU101385.1|BU101385
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|89761969|gb|DY689774.1|DY689774
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|21810013|gb|BQ668331.1|BQ668331
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|78119879|gb|DV538263.1|DV538263
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
EST: gi|45568458|gb|CK986074.1|CK986074
EST:     GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG                         GATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC
genomic: GGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGC

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: 154

TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGCTATCGATACG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 155

TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGCTATCGATACG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 138

TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGCTATCGATACG


Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 85

TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAGgtagtatccg ... atactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGCTATCGATACG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgttgtagctttatatgaagattttgatatgctcgtatatatcatactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGCTATCGATACG
                       ttttgat  putative branch site (score: 85)
           tttatatgaagatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtatccggatgtcatcaccattacttacatttcttgttgtagctttatatgaagattttgatatgctcgtatatatcatactggcagGATGTTTCGAGAATTCGAGGAGCATGATTTTGCAAGGACAGGAAGTACTGCTATCGATACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA