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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagtccccattcccgcgccgccgccgtcgccgtcgctgatctgaaacccagcgtatctcctgcttatcctcggttgtttgtccccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGTGGGCATCAACAAGGGCCATGTCGTCACCAAGCGCGAGCTGCCTCTGCGC

Basic information

species Zea mays
transcript GRMZM2G009936_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G009936_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g38520.3 (Oryza sativa), 3'ss of exon 1
gcaagtccccattcccgcgccgccgccgtcgccgtcgctgatctgaaaccc-agcgtatctcctgctt-------atcctcggttgtttgtccccgc---------gcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGTGGGCATCAACAAGGGCCATGTCGTCACCAAGCGCGAGCTGCCTCTGCGC
| |||   |||  | | ||||||| ||  | ||| | | |||||||||||| ||| | |||||| | |          | ||    | |   |||||         |  |||||||  |  |  ||  ||||||||| ||||||||||||| || |||||||||||||||||||||||||| ||||||||||||||||||||||| |  |||
gtaag---ccagccgc-cgccgccaccacctccgcctccgatctgaaaccctagcctctctcctccctcggcgccgctcacgtagatcttctcccgctgcttgttcgtgcagGAAAAAGGGCTCCCCGATGGCGCCGTCGCAGCCGAAGTCCGGGCTCTTCGTGGGCATCAACAAGGGCCACGTCGTCACCAAGCGCGAGCTGCCGCCTCGC

upper sequence: GRMZM2G009936_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g38520.2 (Oryza sativa), 3'ss of exon 1
gcaag-tccccattcccgcgccgccgccgtcgccgtcgctgatctgaaaccc-agcgtatctcctgcttatcctcggtt-------gtttgtccccg---------cgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGTGGGCATCAACAAGGGCCATGTCGTCACCAAGCGCGAGCTGCCTCTGCGC
| ||| |   |   ||  ||||||| ||  | ||| | | |||||||||||| ||| | |||||| | |   | | | |        | |   ||||         ||  |||||||  |  |  ||  ||||||||| ||||||||||||| || |||||||||||||||||||||||||| ||||||||||||||||||||||| |  |||
gtaaggtaagccagccgccgccgccaccacctccgcctccgatctgaaaccctagcctctctcctccctcggcgccgctcacgtagatcttctcccgctgcttgttcgtgcagGAAAAAGGGCTCCCCGATGGCGCCGTCGCAGCCGAAGTCCGGGCTCTTCGTGGGCATCAACAAGGGCCACGTCGTCACCAAGCGCGAGCTGCCGCCTCGC
















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|211459788|gb|FL211161.1|FL211161
EST:     CTCGGTAGCAGCTGGCTCACTTCTCC-----AG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|18181244|gb|BM382454.1|BM382454
EST:     CTGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211459782|gb|FL211155.1|FL211155
EST:     CTCGGTAGCAGCTGGCTCACTTCTCC-----AG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32907413|gb|CF012226.1|CF012226
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32907669|gb|CF012482.1|CF012482
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|61236448|gb|DN586201.1|DN586201
EST:     GGTAGCAGCTGGCTCACTTCTCC-----AG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211332465|gb|FL177705.1|FL177705
EST:     CTCGGTAGCAGCTGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCG-CGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211459791|gb|FL211164.1|FL211164
EST:     GGTAGCAGCTGGCTCACTTCTCC-----AG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211457268|gb|FL211152.1|FL211152
EST:     CTCGGTAGCAGCTGGCTCACTTCTCC-----AG                         GAAAGTGTTCGTCCTCATGGCGCCG-CGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32908944|gb|CF013757.1|CF013757
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32912594|gb|CF017406.1|CF017406
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32917319|gb|CF022131.1|CF022131
EST:     CTCGGTAGCAGCCGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|83278771|gb|DV942779.1|DV942779
EST:     CTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32911562|gb|CF016374.1|CF016374
EST:     GGTAGCAGCCGGCTCACTTCTCC-----AG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211457269|gb|FL211153.1|FL211153
EST:     CTCGGTAGCAGCTGGCTCACTTCTCC-----AG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211459790|gb|FL211163.1|FL211163
EST:     AGCAGCTGGCTCACTTCTCC-----AG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: AGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32908543|gb|CF013356.1|CF013356
EST:     GGTAGCAGCCGGCTCACTTCTCC-----AG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|33090967|gb|CF050961.1|CF050961
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|31664095|gb|CD573275.1|CD573275
EST:     AGCTGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: AGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32912606|gb|CF017418.1|CF017418
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32911788|gb|CF016600.1|CF016600
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|108953539|gb|EC364765.1|EC364765
EST:     AGCAGCTGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: AGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32944524|gb|CF049343.1|CF049343
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211462306|gb|FL211169.1|FL211169
EST:     GGTAGCAGCTGGCTCACTTCTCC-----AG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32911787|gb|CF016599.1|CF016599
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211462307|gb|FL211170.1|FL211170
EST:     CTCGGTAGCAGCTGGCTCACTTCTCC-----AG                         GAAAGTKTTCGTCCTCATGGCGCCG-CGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|58029751|gb|CX725178.1|CX725178
EST:     GGTAGCAGCTGGCTCACTTCTCC-----AG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211459795|gb|FL211168.1|FL211168
EST:     CTCGGTAGCAGCTGGCTCACTTCTCC-----AG                         GAAAGTGTTCGTCCTCATGGCGCCG-CGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|44681860|gb|CK786908.1|CK786908
EST:     GGTAGCAGCTGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211459794|gb|FL211167.1|FL211167
EST:     CTCGGTAGCAGCTGGCTCACTTCTCC-----AG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32907103|gb|CF011916.1|CF011916
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211462308|gb|FL211171.1|FL211171
EST:     CTCGGTAGCAGCTGGGTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32944166|gb|CF048985.1|CF048985
EST:     GGTAGCAGCCGGCTCACTTCTCC-----AG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211330298|gb|FL177689.1|FL177689
EST:     AGCAGCTGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: AGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32937383|gb|CF042202.1|CF042202
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211459793|gb|FL211166.1|FL211166
EST:     CTCGGTAGCAGCTGGCTCACTTCTCC-----AG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|113701970|gb|EE679474.1|EE679474
EST:     GGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211321619|gb|FL177626.1|FL177626
EST:     CGGTAGCAGCTGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CGGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|60336735|gb|DN203708.1|DN203708
EST:     CTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32936247|gb|CF041059.1|CF041059
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|76281147|gb|DV020715.1|DV020715
EST:     GCTGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211330295|gb|FL177686.1|FL177686
EST:     AGCAGCTGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: AGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32909097|gb|CF013909.1|CF013909
EST:     GTAGCAGCCGGCTCACTTCTCC-----AG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211321625|gb|FL177632.1|FL177632
EST:     GGTAGCAGCTGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCG-CGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211323791|gb|FL177640.1|FL177640
EST:     GGTAGCAGCTGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCG-CGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32856146|gb|CD995827.1|CD995827
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|31611937|gb|CD568559.1|CD568559
EST:     AGCTGGCTCACTTCTCCAGG-AAG                         GAAAG-GTTCG-CCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: AGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT

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: 26 (upstream exon), 49 (downstream exon)
Score: 685

CATTCCGCTAGGGTTTCTCCTCGGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGTGGGCATCAACAAGGGCCATGTCGTCACCAAGCGCGAGCTGCCTCTGCGC


Block sizes: 33 (upstream exon), 49 (downstream exon)
Score: 926

CATTCCGCTAGGGTTTCTCCTCGGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGTGGGCATCAACAAGGGCCATGTCGTCACCAAGCGCGAGCTGCCTCTGCGC


Block sizes: 33 (upstream exon), 49 (downstream exon)
Score: 686

CATTCCGCTAGGGTTTCTCCTCGGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGTGGGCATCAACAAGGGCCATGTCGTCACCAAGCGCGAGCTGCCTCTGCGC


Block sizes: 28 (upstream exon), 49 (downstream exon)
Score: 405

CATTCCGCTAGGGTTTCTCCTCGGTAGCAGCTGGCTCACTTCTCCAGGTAAGgcaagtcccc ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGTGGGCATCAACAAGGGCCATGTCGTCACCAAGCGCGAGCTGCCTCTGCGC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctgaaacccagcgtatctcctgcttatcctcggttgtttgtccccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGTGGGCATCAACAAGGGCCATGTCGTCACCAAGCGCGAGCTGCCTCTGCGC
 cgctgat  putative branch site (score: 405)
                                      tttgtcccc  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcaagtccccattcccgcgccgccgccgtcgccgtcgctgatctgaaacccagcgtatctcctgcttatcctcggttgtttgtccccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGTGGGCATCAACAAGGGCCATGTCGTCACCAAGCGCGAGCTGCCTCTGCGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -CGCCGCCG