Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttccctcttttcttttatttctatgtttctatggatatgtatgttcactagactcaagagttcttgtccctggagcttatgagacttgtaatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACCAGAGCAAGTTGAGCTACTGCTTGCCAATTTGTTTGAAGGAAAACAAGAG

Basic information

species Oryza sativa
transcript LOC_Os04g58880.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g58880.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G074530_T01 (Zea mays), 3'ss of exon 5
---------------ttttccctcttttcttttatt--------tctatgt-ttctatggata-----tgta-tgttcactagactcaagagttcttgtccctggagc-ttatgagacttg-taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACCAGAGCAAGTTGAGCTACTGCTTGCCAATTTGTTTGAAGGAAAACAAGAG
               |  ||  |  ||  | | |          |  | ||  | | || |       || | |||||  |    |     |||| ||   |   | | || ||   |||| | |||| |||||||||||| ||||| ||||| ||||| || ||||| || |||||||| || |||||| | ||||| ||||| | |||||| || || || |||||||| 
gtacgctgctctgactcctcgttacttgttgtaagcagtgaaagttaacgtactttgtgaaagattcctgcactgttccttgtggtttcacgttcatgctgcataaacattctgtttcttgatgatctgtagGCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCCCGAGCAACTCGAGCTGCTGCTAGGCAATTTATTCGAGGGGAAACAAGAA
















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|88661470|gb|CI455396.1|CI455396
EST:     GCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|3767966|gb|AU031993.1|AU031993
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88289631|gb|CI522764.1|CI522764
EST:     GCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88837052|gb|CI078412.1|CI078412
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88262472|gb|CI366246.1|CI366246
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88663491|gb|CI482527.1|CI482527
EST:     ATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: ATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88230312|gb|CI230188.1|CI230188
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88834274|gb|CI000638.1|CI000638
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88475913|gb|CI413184.1|CI413184
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|109713099|gb|CI105707.1|CI105707
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|86842877|gb|CI342140.1|CI342140
EST:     CTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88662396|gb|CI467980.1|CI467980
EST:     CTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: CTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88663307|gb|CI478489.1|CI478489
EST:     AATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: AATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88661839|gb|CI460285.1|CI460285
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88661046|gb|CI449567.1|CI449567
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|218484890|gb|FG963139.1|FG963139
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCTGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88482911|gb|CI420182.1|CI420182
EST:     GCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88508107|gb|CI435613.1|CI435613
EST:     TTGCTGAAATCCTNTTGCCTGCATACAGATCTTTCCTAAAGGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACAC
genomic: TTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAA-GCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACAC
EST: gi|29641430|gb|CB646437.1|CB646437
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|29627850|gb|CB632861.1|CB632861
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCTGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88663196|gb|CI479071.1|CI479071
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88661936|gb|CI460565.1|CI460565
EST:     GTTGGTGANATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGGACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|86834978|gb|CI346458.1|CI346458
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGGCAAGGCACCCGGAAAATATGTCAAGCACACAC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACA-GCAAGGCACCCGGAAAATATGTCAAGCACACAC
EST: gi|29630824|gb|CB635833.1|CB635833
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCTGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88478970|gb|CI416241.1|CI416241
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88463077|gb|CI522188.1|CI522188
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|86861341|gb|CI328108.1|CI328108
EST:     ATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAA-GCACCCGGAAAATATGTCAAGCACACACC
genomic: ATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88663622|gb|CI484073.1|CI484073
EST:     ATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: ATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88295088|gb|CI523042.1|CI523042
EST:     TACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: TACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|29665183|gb|CB661458.1|CB661458
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCTTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACCCC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88491610|gb|CI428882.1|CI428882
EST:     GCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|86435502|gb|CI106735.1|CI106735
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|29624958|gb|CB629969.1|CB629969
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCTGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|29677754|gb|CB674029.1|CB674029
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|29623116|gb|CB628127.1|CB628127
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTTTCATGGAGAACAGCAAGGCACCTGGAAAATATGTCAAGCACACCCC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|29677753|gb|CB674028.1|CB674028
EST:     GGTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88661060|gb|CI449746.1|CI449746
EST:     CTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: CTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|86864009|gb|CI332932.1|CI332932
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88833534|gb|CI077015.1|CI077015
EST:     CCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: CCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88509258|gb|CI436764.1|CI436764
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88517251|gb|CI444905.1|CI444905
EST:     CAGATCTTTCCTAAAGGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACAC
genomic: CAGATCTTTCCTAAA-GCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACAC
EST: gi|86901931|gb|CI298578.1|CI298578
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|29669621|gb|CB665896.1|CB665896
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88506282|gb|CI433788.1|CI433788
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88508087|gb|CI435593.1|CI435593
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88662145|gb|CI465424.1|CI465424
EST:     TGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATTTCAAGCACACACC
genomic: TGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88472045|gb|CI409316.1|CI409316
EST:     CATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: CATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88281883|gb|CI403279.1|CI403279
EST:     TGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: TGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|88477810|gb|CI415081.1|CI415081
EST:     AATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: AATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
EST: gi|29641429|gb|CB646436.1|CB646436
EST:     GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGG                         GCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC
genomic: GTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACC

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: 61 (upstream exon), 49 (downstream exon)
Score: 5

GTGGCTGGTCTGTTCCAGATACGGAGTTGCGTGAGTCACTAAGACTTGCAGTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttct ... taatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACCAGAGCAAGTTGAGCTACTGCTTGCCAATTTGTTTGAAGGAAAACAAGAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcactagactcaagagttcttgtccctggagcttatgagacttgtaatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACCAGAGCAAGTTGAGCTACTGCTTGCCAATTTGTTTGAAGGAAAACAAGAG
                                             taatctata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttttccctcttttcttttatttctatgtttctatggatatgtatgttcactagactcaagagttcttgtccctggagcttatgagacttgtaatctatagGCCTCTCATCGAGAACAGCAAGGCACCCGGAAAATATGTCAAGCACACACCAGAGCAAGTTGAGCTACTGCTTGCCAATTTGTTTGAAGGAAAACAAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - -tgtttct
- - - - - - - - - - - - - - - - - - - atgtatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttatg