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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTTTTCTCGCTGGAAAGAAGGTTATGCAGATAGCGCTGGGGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctgttccttttcagaatttagtaggcactgcattccccattaatatgacgttttgatgaaagtaacttcgccgtgtttag

Basic information

species Zea mays
transcript GRMZM2G467086_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G467086_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os11g01420.1 (Oryza sativa), 5'ss of exon 3
GATTTTTCTCGCTGGAAAGAAGGTTATGCAGATAGCGCTGGGGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctgttccttttcagaatttagtaggcactgcattcc---ccatt-------aatatgacgttttgatgaaagtaacttcgccgtgtttag
||| || || |||||||||||||| |||||||||||||||||||||||  ||||||||||||||||||||||||| || |||||||||||||||| |  | | | || | |  | || | |   | | || |||   |||||       | |||||  | ||  |  | |||  ||  | || |||||
GATATTCCTTGCTGGAAAGAAGGTCATGCAGATAGCGCTGGGGCGTTCATCTGCTGATGAAGCTAAAACAGGCCTTCATAAACTTTCCAAGgtgacattt-tcctttcttaacacttggcatataatacaatccacaccattcctatgaattatgagctctttcttgacgtatgttttctgtatttag

upper sequence: GRMZM2G467086_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os12g01430.1 (Oryza sativa), 5'ss of exon 3
GATTTTTCTCGCTGGAAAGAAGGTTATGCAGATAGCGCTGGGGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctgttccttttcagaatttagtaggcactgcattcc---ccatt-------aatatgacgttttgatgaaagtaacttcgccgtgtttag
||| || || |||||||||||||| |||||||||||| |||||||||| |||||||||||||||||||||||||| || |||||||||||||||| |  | | | || | |  | || | |   | | || |||   |||||       | |||||  | ||  |  | |||  ||  | || |||||
GATATTCCTTGCTGGAAAGAAGGTCATGCAGATAGCGTTGGGGCGTTCACCTGCTGATGAAGCTAAAACAGGCCTTCATAAACTTTCCAAGgtgacattt-tcctttcttaacacttggcatataatacaatccacaccattcctttgaattatgagctcttacttgatgtatgttttctgtatttag
















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:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|26559664|gb|CA831899.1|CA831899
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|149010282|gb|EE042111.2|EE042111
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|60347115|gb|DN214088.1|DN214088
EST:     GGCGTTCGCATGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|26558517|gb|CA830752.1|CA830752
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|22133771|gb|BQ833893.1|BQ833893
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|61118871|gb|DN559832.1|DN559832
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|67015514|gb|CO444263.1|CO444263
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|20802773|gb|BQ293823.1|BQ293823
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|71441332|gb|DR822382.1|DR822382
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|37397689|gb|CF636152.1|CF636152
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAATTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|40337158|gb|CK371228.1|CK371228
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|5499042|gb|AI854909.1|AI854909
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|71434423|gb|DR815473.1|DR815473
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|71441331|gb|DR822381.1|DR822381
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|71447892|gb|DR828942.1|DR828942
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|5439234|gb|AI820155.1|AI820155
EST:     AAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCNCCAATCTTCCAAGGGATGAT
genomic: AAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|5895917|gb|AW037163.1|AW037163
EST:     CACAAACTTTCCAAG                         NTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: CACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|71322698|gb|DR798027.1|DR798027
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|78544743|gb|DV622241.1|DV622241
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|211520202|gb|FL010171.1|FL010171
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|29130506|gb|CB381210.1|CB381210
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|22819557|gb|BU499647.1|BU499647
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|22545521|gb|BU097880.1|BU097880
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|67020213|gb|CO448962.1|CO448962
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|120480859|gb|EH211066.1|EH211066
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAAYTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|101383868|gb|EB813989.1|EB813989
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|60399755|gb|DN232565.1|DN232565
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|20301485|gb|BQ164428.1|BQ164428
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|148969444|gb|EE020248.2|EE020248
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|78026443|gb|DV494830.1|DV494830
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|5398724|gb|AI812189.1|AI812189
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|28987333|gb|CB351581.1|CB351581
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|149015123|gb|EE044887.2|EE044887
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|87156128|gb|DY400917.1|DY400917
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|22549184|gb|BU101385.1|BU101385
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|89761969|gb|DY689774.1|DY689774
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|21810013|gb|BQ668331.1|BQ668331
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|78119879|gb|DV538263.1|DV538263
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
EST: gi|45568458|gb|CK986074.1|CK986074
EST:     GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAG                         TTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT
genomic: GGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGAT

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: 210

GATTTTTCTCGCTGGAAAGAAGGTTATGCAGATAGCGCTGGGGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 249

GATTTTTCTCGCTGGAAAGAAGGTTATGCAGATAGCGCTGGGGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 202

GATTTTTCTCGCTGGAAAGAAGGTTATGCAGATAGCGCTGGGGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 127

GATTTTTCTCGCTGGAAAGAAGGTTATGCAGATAGCGCTGGGGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctg ... ccgtgtttagTTCCTTCAAGGCAACTCTGGTCTGTTATTCACCAATCTTCCAAGGGATGATGTTGAGAG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATTTTTCTCGCTGGAAAGAAGGTTATGCAGATAGCGCTGGGGCGTTCGCCTGCTGATGAAGCTAAAACAGGCCTCCACAAACTTTCCAAGgtgagacctgttccttttcagaatttagtaggcactgcattccccattaatatgacgttttgatgaaagtaacttcgccgtgtttag

- - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC