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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgacaaatatttagcgtaccttcaaataactgtttaagcaataatatatgagcttactttcctagaataacctacattccgtctgcccctgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACCAAAGAACTTAGCTAAATCTGTTCTTGAGGAAGGTGGCTGGTCAACCTTT

Basic information

species Zea mays
transcript GRMZM2G017941_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G017941_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g03380.1 (Oryza sativa), 3'ss of exon 2
-----atgacaaatatttagcgtaccttcaaataactgtttaagcaataatatatgagcttactttcctagaataacctacattccgtctgcccctgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACCAAAGAACTTAGCTAAATCTGTTCTTGAGGAAGGTGGCTGGTCAACCTTT
     ||   |||||||||  | |||||    |   | |||    ||| | || ||| ||   |||  | |  |||  ||||||   | | ||  |   ||||||||||   |||||||| ||||| ||  ||||||||||||| ||| | || || |||| |||||  |||||||||||||| |||||||| ||||||| ||| 
ttcatattgaaaatattta-tggacctttctgtggttcttt---taatcaaatttgatctgggtttagttgtttaagttacattttatttacct-tactctccagATTCTCTTCTGATGAGGCTAAAGAAATAGTCCATTATCAGACAGTATCCCCGAAGAGCTTAGTGAAATCTGTTCTTGAAGAAGGTGGTTGGTCAAACTTG

upper sequence: GRMZM2G017941_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g03060.2 (Oryza sativa), 3'ss of exon 2
--atgacaaat--atttagcgtaccttcaaataactgtttaagcaataatatatgagcttactttcctagaataacctacattccgtctgcccctgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACCAAAGAACTTAGCTAAATCTGTTCTTGAGGAAGGTGGCTGGTCAACCTTT
  || || | |  || |||   |  ||     | ||  ||  |   | || | | | |  | |||  | | ||||  ||||||   | | ||  ||  | ||||||||   ||||||||  |||| ||  | ||| | ||||| ||| | || ||||||| |||||  ||||||||||||||||||||||| ||||||| ||| 
aaattaccagttcatatagaaaatatttgctgaccttctt--gtggttattt-taatcaaagtttagttgtataaattacattttatttacct-tgctcgccagATTCTCTTCTGATGAGACTAAAGAAATGGTCTACTATCAGACAGTATCCCCAAAGAGCTTAGTGAAATCTGTTCTTGAGGAAGGTGGTTGGTCAAACTTG
















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|211169637|gb|FL169510.1|FL169510
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|149084465|gb|EE173923.2|EE173923
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211172993|gb|FL169536.1|FL169536
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCAT-ATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211171318|gb|FL169524.1|FL169524
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCA-TATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211169635|gb|FL169508.1|FL169508
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCAT-ATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|149108720|gb|EE292928.2|EE292928
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211172991|gb|FL169534.1|FL169534
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCAT-ATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|71329488|gb|DR801466.1|DR801466
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211171321|gb|FL169527.1|FL169527
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCAT-ATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211174667|gb|FL169548.1|FL169548
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211169640|gb|FL169513.1|FL169513
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211171310|gb|FL169516.1|FL169516
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCA-TATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|149013784|gb|EE043248.2|EE043248
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211171315|gb|FL169521.1|FL169521
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|91877946|gb|EB407903.1|EB407903
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211171316|gb|FL169522.1|FL169522
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211171312|gb|FL169518.1|FL169518
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCTATKATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|93281025|gb|EB673289.1|EB673289
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211171322|gb|FL169528.1|FL169528
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|78106618|gb|DV525036.1|DV525036
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211169633|gb|FL169506.1|FL169506
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|89756714|gb|DY686644.1|DY686644
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|101399852|gb|EB821772.1|EB821772
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211172995|gb|FL169538.1|FL169538
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211172994|gb|FL169537.1|FL169537
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTWAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211172988|gb|FL169531.1|FL169531
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211169634|gb|FL169507.1|FL169507
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCAT-ATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211169632|gb|FL169505.1|FL169505
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATGATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211171320|gb|FL169526.1|FL169526
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211169641|gb|FL169514.1|FL169514
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211174666|gb|FL169547.1|FL169547
EST:     GCTGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCCAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCGATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211171323|gb|FL169529.1|FL169529
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCA-TATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211171311|gb|FL169517.1|FL169517
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|149072392|gb|EE160666.2|EE160666
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211172996|gb|FL169539.1|FL169539
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATYATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|148982778|gb|EE028604.2|EE028604
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC
EST: gi|211172987|gb|FL169530.1|FL169530
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGG                         ATTCCGCTCTGATGATGCTAAGGAGGTAGTCCAT-ATCAAACAATCTCACC
genomic: GCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACC

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: 118

CGGCATGGGCAGTGCTGGCGGCGGTCCTCGTCGCGGCGCAGGTGGCGTCTGCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACCAAAGAACTTAGCTAAATCTGTTCTTGAGGAAGGTGGCTGGTCAACCTTT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 208

CGGCATGGGCAGTGCTGGCGGCGGTCCTCGTCGCGGCGCAGGTGGCGTCTGCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACCAAAGAACTTAGCTAAATCTGTTCTTGAGGAAGGTGGCTGGTCAACCTTT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 97

CGGCATGGGCAGTGCTGGCGGCGGTCCTCGTCGCGGCGCAGGTGGCGTCTGCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACCAAAGAACTTAGCTAAATCTGTTCTTGAGGAAGGTGGCTGGTCAACCTTT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 308

CGGCATGGGCAGTGCTGGCGGCGGTCCTCGTCGCGGCGCAGGTGGCGTCTGCGGCGCCGGTCACGGCGCCAGCGTTCCTCTGGGCGCCTAAGAACTACGGgtgggtacct ... tgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACCAAAGAACTTAGCTAAATCTGTTCTTGAGGAAGGTGGCTGGTCAACCTTT




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatatgagcttactttcctagaataacctacattccgtctgcccctgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACCAAAGAACTTAGCTAAATCTGTTCTTGAGGAAGGTGGCTGGTCAACCTTT
                    gaataac  putative branch site (score: 308)
                                ttccgtctgcccctgt  putative PPT
                  tagaataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgacaaatatttagcgtaccttcaaataactgtttaagcaataatatatgagcttactttcctagaataacctacattccgtctgcccctgtcctccagATTCCGCTCTGATGATGCTAAGGAGGTAGTCCATTATCAAACAATCTCACCAAAGAACTTAGCTAAATCTGTTCTTGAGGAAGGTGGCTGGTCAACCTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - accttca
- - - - - - - - - - - - - - -actgttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acctaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgcccc