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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggcaagtccccattcccgcgccgccgccgtcgccgtcgctgatctgaaacccagcgtatctcctgcttatcctcggttgtttgtccccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGTGGGCATCAACAAGGGCCATGTCGTCACCAAGCGCGAGCTGCCTCTGCGC

Basic information

species Zea mays
transcript GRMZM2G009936_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G009936_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g38520.3 (Oryza sativa), 3'ss of exon 1
gtaaggcaagtccccattcccgcgccgccgccgtcgccgtcgctgatctgaaaccc-agcgtatctcctgctt-------atcctcggttgtttgtccccgc---------gcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGTGGGCATCAACAAGGGCCATGTCGTCACCAAGCGCGAGCTGCCTCTGCGC
     | |||   |||  | | ||||||| ||  | ||| | | |||||||||||| ||| | |||||| | |          | ||    | |   |||||         |  |||||||  |  |  ||  ||||||||| ||||||||||||| || |||||||||||||||||||||||||| ||||||||||||||||||||||| |  |||
-----gtaag---ccagccgc-cgccgccaccacctccgcctccgatctgaaaccctagcctctctcctccctcggcgccgctcacgtagatcttctcccgctgcttgttcgtgcagGAAAAAGGGCTCCCCGATGGCGCCGTCGCAGCCGAAGTCCGGGCTCTTCGTGGGCATCAACAAGGGCCACGTCGTCACCAAGCGCGAGCTGCCGCCTCGC

upper sequence: GRMZM2G009936_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g38520.2 (Oryza sativa), 3'ss of exon 1
gtaaggcaagtccccattcccgcgccgccgccgtcgccgtcgctgatctgaaaccc-agcgtatctcctgcttatcctcggtt-------gtttgtccccg---------cgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGTGGGCATCAACAAGGGCCATGTCGTCACCAAGCGCGAGCTGCCTCTGCGC
|||||| |||   |||  | | ||||||| ||  | ||| | | |||||||||||| ||| | |||||| | |   | | | |        | |   ||||         ||  |||||||  |  |  ||  ||||||||| ||||||||||||| || |||||||||||||||||||||||||| ||||||||||||||||||||||| |  |||
gtaaggtaag---ccagccgc-cgccgccaccacctccgcctccgatctgaaaccctagcctctctcctccctcggcgccgctcacgtagatcttctcccgctgcttgttcgtgcagGAAAAAGGGCTCCCCGATGGCGCCGTCGCAGCCGAAGTCCGGGCTCTTCGTGGGCATCAACAAGGGCCACGTCGTCACCAAGCGCGAGCTGCCGCCTCGC
















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|32856146|gb|CD995827.1|CD995827
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                     
genomic: GGTAGCAGCTGGCTCACTTCTCC-----AGgtaaggcaag ... ccgcgc
EST: gi|211462307|gb|FL211170.1|FL211170
EST:     CTCGGTAGCAGCTGGCTCACTTCTCCAG                         GAAAGTKTTCGTCCTCATGGCGCCG-CGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211305826|gb|FL092717.1|FL092717
EST:     GCTAGGGTTTCTCCTCGGTAGCAGCCGGCTCA------CAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GCTAGGGTTTCTCCTCGGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211459788|gb|FL211161.1|FL211161
EST:     CTCGGTAGCAGCTGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211462306|gb|FL211169.1|FL211169
EST:     GGTAGCAGCTGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211459794|gb|FL211167.1|FL211167
EST:     CTCGGTAGCAGCTGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|60356261|gb|DN223234.1|DN223234
EST:     CTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32937383|gb|CF042202.1|CF042202
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                     
genomic: GGTAGCAGCTGGCTCACTTCTCC-----AGgtaaggcaag ... ccgcgc
EST: gi|32915423|gb|CF020235.1|CF020235
EST:     GGTAGCAGCCGGCTCATTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGTCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211459795|gb|FL211168.1|FL211168
EST:     CTCGGTAGCAGCTGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCG-CGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|61236448|gb|DN586201.1|DN586201
EST:     GGTAGCAGCTGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211459786|gb|FL211159.1|FL211159
EST:     GGTAGCAGCTGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCG-CGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32911788|gb|CF016600.1|CF016600
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                     
genomic: GGTAGCAGCTGGCTCACTTCTCC-----AGgtaaggcaag ... ccgcgc
EST: gi|32907413|gb|CF012226.1|CF012226
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                     
genomic: GGTAGCAGCTGGCTCACTTCTCC-----AGgtaaggcaag ... ccgcgc
EST: gi|32911562|gb|CF016374.1|CF016374
EST:     GGTAGCAGCCGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32911787|gb|CF016599.1|CF016599
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                     
genomic: GGTAGCAGCTGGCTCACTTCTCC-----AGgtaaggcaag ... ccgcgc
EST: gi|32908543|gb|CF013356.1|CF013356
EST:     GGTAGCAGCCGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211459790|gb|FL211163.1|FL211163
EST:     AGCAGCTGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: AGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32917319|gb|CF022131.1|CF022131
EST:     CTCGGTAGCAGCCGGCTCACTTCTCCAGGTAAG                     
genomic: CTCGGTAGCAGCTGGCTCACTTCTCC-----AGgtaaggcaag ... ccgcgc
EST: gi|211459785|gb|FL211158.1|FL211158
EST:     GTAGCAGCTGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211457269|gb|FL211153.1|FL211153
EST:     CTCGGTAGCAGCTGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211330298|gb|FL177689.1|FL177689
EST:     AGCAGCTGGCTCACTTCTCCAGGTAAG                     
genomic: AGCAGCTGGCTCACTTCTCC-----AGgtaaggcaag ... ccgcgc
EST: gi|32907669|gb|CF012482.1|CF012482
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                     
genomic: GGTAGCAGCTGGCTCACTTCTCC-----AGgtaaggcaag ... ccgcgc
EST: gi|211519525|gb|FL441901.1|FL441901
EST:     TCCGCTAGGGTTTCTCCTCGGTAGCAGCCGGCTCA------CAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: TCCGCTAGGGTTTCTCCTCGGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|58029751|gb|CX725178.1|CX725178
EST:     GGTAGCAGCTGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211457268|gb|FL211152.1|FL211152
EST:     CTCGGTAGCAGCTGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCG-CGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32912606|gb|CF017418.1|CF017418
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                     
genomic: GGTAGCAGCTGGCTCACTTCTCC-----AGgtaaggcaag ... ccgcgc
EST: gi|32909097|gb|CF013909.1|CF013909
EST:     GTAGCAGCCGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|108953539|gb|EC364765.1|EC364765
EST:     AGCAGCTGGCTCACTTCTCCAGGTAAG                     
genomic: AGCAGCTGGCTCACTTCTCC-----AGgtaaggcaag ... ccgcgc
EST: gi|211459781|gb|FL211154.1|FL211154
EST:     GGTAGCAGCTGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211459791|gb|FL211164.1|FL211164
EST:     GGTAGCAGCTGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32912707|gb|CF017519.1|CF017519
EST:     GGTAGCAGCCGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211321625|gb|FL177632.1|FL177632
EST:     GGTAGCAGCTGGCTCACTTCTCCAGGTAAG                     
genomic: GGTAGCAGCTGGCTCACTTCTCC-----AGgtaaggcaag ... ccgcgc
EST: gi|5757243|gb|AI964530.1|AI964530
EST:     CTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32933547|gb|CF038359.1|CF038359
EST:     GGTAGCAGCCGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|31611937|gb|CD568559.1|CD568559
EST:     AGCTGGCTCACTTCTCCAGGAAG                      
genomic: AGCTGGCTCACTTCTCC----AGgtaaggcaag ... ccgcgca
EST: gi|32936247|gb|CF041059.1|CF041059
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                     
genomic: GGTAGCAGCTGGCTCACTTCTCC-----AGgtaaggcaag ... ccgcgc
EST: gi|37397800|gb|CF636208.1|CF636208
EST:     GCAGCCGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32908702|gb|CF013515.1|CF013515
EST:     GGTAGCAGCCGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|44681860|gb|CK786908.1|CK786908
EST:     GGTAGCAGCTGGCTCACTTCTCCAGGTAAG                     
genomic: GGTAGCAGCTGGCTCACTTCTCC-----AGgtaaggcaag ... ccgcgc
EST: gi|211462308|gb|FL211171.1|FL211171
EST:     CTCGGTAGCAGCTGGGTCACTTCTCCAGGTAAG                     
genomic: CTCGGTAGCAGCTGGCTCACTTCTCC-----AGgtaaggcaag ... ccgcgc
EST: gi|211459782|gb|FL211155.1|FL211155
EST:     CTCGGTAGCAGCTGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32906948|gb|CF011761.1|CF011761
EST:     GGTAGCAGCCGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|32907103|gb|CF011916.1|CF011916
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                     
genomic: GGTAGCAGCTGGCTCACTTCTCC-----AGgtaaggcaag ... ccgcgc
EST: gi|32944166|gb|CF048985.1|CF048985
EST:     GGTAGCAGCCGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: GGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
EST: gi|211330295|gb|FL177686.1|FL177686
EST:     AGCAGCTGGCTCACTTCTCCAGGTAAG                     
genomic: AGCAGCTGGCTCACTTCTCC-----AGgtaaggcaag ... ccgcgc
EST: gi|33090967|gb|CF050961.1|CF050961
EST:     GGTAGCAGCCGGCTCACTTCTCCAGGTAAG                     
genomic: GGTAGCAGCTGGCTCACTTCTCC-----AGgtaaggcaag ... ccgcgc
EST: gi|211459793|gb|FL211166.1|FL211166
EST:     CTCGGTAGCAGCTGGCTCACTTCTCCAG                         GAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGT
genomic: CTCGGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... 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: 24 (upstream exon), 49 (downstream exon)
Score: 689

CATTCCGCTAGGGTTTCTCCTCGGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGTGGGCATCAACAAGGGCCATGTCGTCACCAAGCGCGAGCTGCCTCTGCGC


Block sizes: 29 (upstream exon), 49 (downstream exon)
Score: 882

CATTCCGCTAGGGTTTCTCCTCGGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGTGGGCATCAACAAGGGCCATGTCGTCACCAAGCGCGAGCTGCCTCTGCGC


Block sizes: 28 (upstream exon), 49 (downstream exon)
Score: 911

CATTCCGCTAGGGTTTCTCCTCGGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGTGGGCATCAACAAGGGCCATGTCGTCACCAAGCGCGAGCTGCCTCTGCGC


Block sizes: 28 (upstream exon), 49 (downstream exon)
Score: 412

CATTCCGCTAGGGTTTCTCCTCGGTAGCAGCTGGCTCACTTCTCCAGgtaaggcaag ... ccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGTGGGCATCAACAAGGGCCATGTCGTCACCAAGCGCGAGCTGCCTCTGCGC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctgaaacccagcgtatctcctgcttatcctcggttgtttgtccccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGTGGGCATCAACAAGGGCCATGTCGTCACCAAGCGCGAGCTGCCTCTGCGC
 cgctgat  putative branch site (score: 412)
                                      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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaggcaagtccccattcccgcgccgccgccgtcgccgtcgctgatctgaaacccagcgtatctcctgcttatcctcggttgtttgtccccgcgcacagGAAAGTGTTCGTCCTCATGGCGCCGCCGCAGCCGAAGTCGGGCCTCTTCGTGGGCATCAACAAGGGCCATGTCGTCACCAAGCGCGAGCTGCCTCTGCGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC