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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatttattgtacctttaaatggttatttaagcaagattgcaagaatatatgaccttactgtcctagtatgacctacattccatccactttggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACCAAAGAGCTTAGCTAAATCTGTTCTCGAGGAAGGTGGCTGGTCAAACTTC

Basic information

species Zea mays
transcript GRMZM2G179737_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G179737_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g03060.2 (Oryza sativa), 3'ss of exon 2
tatttattgtacctttaaatggttatttaagcaagattgcaagaatatat-gaccttactgtcctagtatgacctacattccatccactttggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACCAAAGAGCTTAGCTAAATCTGTTCTCGAGGAAGGTGGCTGGTCAAACTTC
 | |||      | |  |     |||||    |   |     |  ||| |  | |  | | |  | |||| |  ||||||  ||  || ||| ||  ||||||||   ||||||||  |||| ||  | ||| | || || ||| | || |||||||||||||  ||||||||||| ||||||||||| ||||||||||| 
aaattaccagttcatatagaaaatatttgctgaccttcttgtggttattttaatcaaagtttagttgtataaattacattttatttaccttgctcg-ccagATTCTCTTCTGATGAGACTAAAGAAATGGTCTACTATCAGACAGTATCCCCAAAGAGCTTAGTGAAATCTGTTCTTGAGGAAGGTGGTTGGTCAAACTTG

upper sequence: GRMZM2G179737_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g03380.1 (Oryza sativa), 3'ss of exon 2
tatttattgtacctttaaatggttatttaagcaaga-ttgcaagaatatatgaccttactgtcctagtatgacctacattccatccactttggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACCAAAGAGCTTAGCTAAATCTGTTCTCGAGGAAGGTGGCTGGTCAAACTTC
|   ||||| |  | |  ||||   |||  |      ||  ||  | || ||| ||   | |  | || | |  ||||||  ||  || ||  || |||||||||   |||||||| ||||| ||  |||||||||| || ||| | || || ||||||||||  ||||||||||| || |||||||| ||||||||||| 
ttcatattgaaaatatttatggacctttctgtggttcttttaatcaaatttgatctgggtttagttgtttaagttacattttatttaccttactc-tccagATTCTCTTCTGATGAGGCTAAAGAAATAGTCCATTATCAGACAGTATCCCCGAAGAGCTTAGTGAAATCTGTTCTTGAAGAAGGTGGTTGGTCAAACTTG
















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|211039304|gb|FL265601.1|FL265601
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCAT-ACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|18385139|gb|BM418338.1|BM418338
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211029487|gb|FL265548.1|FL265548
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCAT-ACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|16746113|gb|BM032543.1|BM032543
EST:     GCGGCGCAGGTCNCGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTNCGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|20507208|gb|BQ279531.1|BQ279531
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211029479|gb|FL265540.1|FL265540
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGTCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATAACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211027046|gb|FL265538.1|FL265538
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCAT-ACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211036859|gb|FL265587.1|FL265587
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTRAGGAGGTAGTCCATAACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211036857|gb|FL265585.1|FL265585
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATNACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211039303|gb|FL265600.1|FL265600
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCAT-ACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|71432608|gb|DR813658.1|DR813658
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|13198687|gb|BG354489.1|BG354489
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|19350892|gb|BM895424.1|BM895424
EST:     GCCAGCGTTCCTG-GGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211034406|gb|FL265569.1|FL265569
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCA-TACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211031967|gb|FL265567.1|FL265567
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCAT-ACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211036870|gb|FL265598.1|FL265598
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211036856|gb|FL265584.1|FL265584
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|91054662|gb|EB165080.1|EB165080
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211027045|gb|FL265537.1|FL265537
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|110515503|gb|EE020091.1|EE020091
EST:     GCGGCGCAGGTCACGGCGCCCGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCCAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211027040|gb|FL265532.1|FL265532
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCAT-ACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|18384806|gb|BM418005.1|BM418005
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211034415|gb|FL265578.1|FL265578
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211029480|gb|FL265541.1|FL265541
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|91054011|gb|EB164429.1|EB164429
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|149021621|gb|EE045803.2|EE045803
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAAGTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|5268511|gb|AI770475.1|AI770475
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211031961|gb|FL265561.1|FL265561
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|148969450|gb|EE020256.2|EE020256
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|13198621|gb|BG354423.1|BG354423
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|60358592|gb|DN225565.1|DN225565
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|149087736|gb|EE287093.2|EE287093
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|16746010|gb|BM032440.1|BM032440
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211029485|gb|FL265546.1|FL265546
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211029491|gb|FL265552.1|FL265552
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCAT-ACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|32831746|gb|CD971424.1|CD971424
EST:     GCGGCGCAGGTCACGGCGCCAG-GTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|88758213|gb|DY542354.1|DY542354
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211029490|gb|FL265551.1|FL265551
EST:     GCGGCGCAGGTCACGGCG-CAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|18384808|gb|BM418007.1|BM418007
EST:     GCGGCGCAGGTCTCGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|7216914|gb|AW563036.1|AW563036
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211036867|gb|FL265595.1|FL265595
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCA-TACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211036864|gb|FL265592.1|FL265592
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211029478|gb|FL265539.1|FL265539
EST:     CGGCGCAGGTCACGGCGCCAGCGTCTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: CGGCGCAGGTCACGGCGCCAGCGT-TCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211079594|gb|FK945964.1|FK945964
EST:     GCGGCGCCGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|93012420|gb|EB637940.1|EB637940
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|18385304|gb|BM418503.1|BM418503
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|211036860|gb|FL265588.1|FL265588
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
EST: gi|149110590|gb|EE294202.2|EE294202
EST:     GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGG                         ATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC
genomic: GCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACC

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), 47 (downstream exon)
Score: 483

CGGCATGGGAGGTGCTGGCTGTGTTGCTCGTCGCGGCGCAGGTGGCGTCAGCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACCAAAGAGCTTAGCTAAATCTGTTCTCGAGGAAGGTGGCTGGTCAAACTTC


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 836

CGGCATGGGAGGTGCTGGCTGTGTTGCTCGTCGCGGCGCAGGTGGCGTCAGCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACCAAAGAGCTTAGCTAAATCTGTTCTCGAGGAAGGTGGCTGGTCAAACTTC


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 671

CGGCATGGGAGGTGCTGGCTGTGTTGCTCGTCGCGGCGCAGGTGGCGTCAGCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACCAAAGAGCTTAGCTAAATCTGTTCTCGAGGAAGGTGGCTGGTCAAACTTC


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 803

CGGCATGGGAGGTGCTGGCTGTGTTGCTCGTCGCGGCGCAGGTGGCGTCAGCGGCGCAGGTCACGGCGCCAGCGTTCCTGTGGGCGCCCAAAAACTACGGgtgagtaact ... ggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACCAAAGAGCTTAGCTAAATCTGTTCTCGAGGAAGGTGGCTGGTCAAACTTC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatatgaccttactgtcctagtatgacctacattccatccactttggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACCAAAGAGCTTAGCTAAATCTGTTCTCGAGGAAGGTGGCTGGTCAAACTTC
      accttac  putative branch site (score: 803)
                                               tcctcc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatttattgtacctttaaatggttatttaagcaagattgcaagaatatatgaccttactgtcctagtatgacctacattccatccactttggtcctccagATTCAGCTCTGATGATGCTAAGGAGGTAGTCCATTACCAAACAATCTCACCAAAGAGCTTAGCTAAATCTGTTCTCGAGGAAGGTGGCTGGTCAAACTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT