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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttccagtcttattctaggactgatgattggacacagtgtcatgtcgtcagatgataataacaagtcaagactgaatttctgtgccttgcttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTGTCAACCATGAAGCTAGTGGTGAAGCCTGATATGCTGTTCGGGAAGCGTG

Basic information

species Zea mays
transcript GRMZM2G107082_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G107082_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g47330.1 (Oryza sativa), 3'ss of exon 1
--gttccagtcttattctaggactgatg---attggacacagtgtcatgtcgtcagatgataataacaa-gtcaagactgaatttctgtgccttgcttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTGTCAACCATGAAGCTAGTGGTGAAGCCTGATATGCTGTTCGGGAAGCGTG
  ||   |   | ||  ||     | |     || |||| ||  |  | | ||  || | ||| || |  |    | ||||  ||||| |  |||   ||    || | || ||||| ||||||||| | ||||| || | |||||||||||||||||||||||||||| | || |||||||| || |||||||||||||||||||
atgtgtgaaattaatcgtaattacggttctcgtttgacatagcatatttttgtttgaagttaaaaatatcggtttggctga--ttctgggatttgtaaaa----agGTTACACAATCGACGGACTTCACAGAGCTGGTAAACCAGCAGCCATGGCTGTCAACCATGAAGTTGGTCGTGAAGCCCGACATGCTGTTCGGGAAGCGTG

upper sequence: GRMZM2G107082_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g47120.1 (Oryza sativa), 3'ss of exon 1
--gttccagtcttattctaggactgatg---attggacacagtgtcatgtcgtcagatgataataacaa-gtcaagactgaatttctgtgccttgcttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTGTCAACCATGAAGCTAGTGGTGAAGCCTGATATGCTGTTCGGGAAGCGTG
  |  | |   | ||  ||     | |     || |||| ||  |  | | ||  || | ||| || |  |    | ||||  ||||| |  |||   ||    || | || ||||| ||||||||| | ||||| || | |||||||||||||||||||||||||||| | || |||||||| || |||||||||||||||||||
atgcgcgaaattaatcttaattacggttctcgtttgacatagcatatttttgtttgaagttaaaaatatcggtttggctga--ttctgggatttgtaaaa----agGTTACACAATCGACGGACTTCACAGAGCTGGTAAACCAGCAGCCATGGCTGTCAACCATGAAGTTGGTCGTGAAGCCCGACATGCTGTTCGGGAAGCGTG
















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|32839448|gb|CD979129.1|CD979129
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCAGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211123623|gb|FL002522.1|FL002522
EST:     AGCACCTCAAGCGCCTCGCGGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCAGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211124411|gb|FL002545.1|FL002545
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGASSTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|18166374|gb|BM336213.1|BM336213
EST:     AGCACCTCAAGCGCCTCGCGGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211125183|gb|FL002551.1|FL002551
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGA-STTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211122850|gb|FL002518.1|FL002518
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|28986581|gb|CB351207.1|CB351207
EST:     AGCACCTCAAGCGCCTCGCGGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|89759015|gb|DY687974.1|DY687974
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211125187|gb|FL002555.1|FL002555
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGA-STTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211123629|gb|FL002528.1|FL002528
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAA
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAA
EST: gi|211124405|gb|FL002539.1|FL002539
EST:     AGCACCTCAAGCGCCTCGCGGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCAGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211124415|gb|FL002549.1|FL002549
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|116817285|gb|EC860108.1|EC860108
EST:     AGCACCTCAAGCGCCTCGCGGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCAGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211122848|gb|FL002516.1|FL002516
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211124408|gb|FL002542.1|FL002542
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211124410|gb|FL002544.1|FL002544
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211123627|gb|FL002526.1|FL002526
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211124413|gb|FL002547.1|FL002547
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGASSTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|148996106|gb|EE035369.2|EE035369
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211124403|gb|FL002537.1|FL002537
EST:     AGCACCTCAAGCGCCTCG-CGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCAGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211123626|gb|FL002525.1|FL002525
EST:     AGCACCTCAAGCGCCTCGG-GGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGC
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGC
EST: gi|71769087|gb|DR967024.1|DR967024
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|32937837|gb|CF042656.1|CF042656
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCAGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211123625|gb|FL002524.1|FL002524
EST:     AGCACCTCAAGCGCCTCGCGGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCAGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211123630|gb|FL002529.1|FL002529
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGA-STTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211123633|gb|FL002532.1|FL002532
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGA-STTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211122849|gb|FL002517.1|FL002517
EST:     GCACCTCAAGCGCCTCGCGCG-CATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCAGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: GCACCTCAAGCGCCTCGC-CGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211124409|gb|FL002543.1|FL002543
EST:     GCACCTCAAGCGCCTCGCGGGGCATCGACCTSACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCAGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: GCACCTCAAGCGCCTCGC-CGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|32936859|gb|CF041678.1|CF041678
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCAGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211124406|gb|FL002540.1|FL002540
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGA-STTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|13558020|gb|BG549376.1|BG549376
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211123634|gb|FL002533.1|FL002533
EST:     AGCACCTCAAGCGCCTCGCGGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCAGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211123636|gb|FL002535.1|FL002535
EST:     AGCACCTCAAGCGCCTCGCGGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCAGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211123631|gb|FL002530.1|FL002530
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAGCTTGT-AGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211122852|gb|FL002520.1|FL002520
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211124416|gb|FL002550.1|FL002550
EST:     AGCACCTCAAGCGCCTCGCGGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCAGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|32838105|gb|CD977783.1|CD977783
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCAGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|88748061|gb|DY532202.1|DY532202
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGATTTCGCGGAGCTTGTGAGCCAGCACCCGTGGGTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|89758437|gb|DY687616.1|DY687616
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|32836591|gb|CD976269.1|CD976269
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCAGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211123628|gb|FL002527.1|FL002527
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGA-STTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211125185|gb|FL002553.1|FL002553
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGA-STTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|6022461|gb|AW067494.1|AW067494
EST:     AGCACCTCAAGCGCCTCGCGGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACAGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|148953532|gb|EE153041.2|EE153041
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211125184|gb|FL002552.1|FL002552
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211124404|gb|FL002538.1|FL002538
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGA-STTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211123635|gb|FL002534.1|FL002534
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGA-STTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211125189|gb|FL002557.1|FL002557
EST:     GCACCTCAAGCGCCTCGC-GNGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCAGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: GCACCTCAAGCGCCTCGCCG-GCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|148941766|gb|EC886727.2|EC886727
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211125188|gb|FL002556.1|FL002556
EST:     AGCACCTCAAGCGCCTCGCGGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCAGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211124412|gb|FL002546.1|FL002546
EST:     AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCGGAS-TTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG
EST: gi|211122851|gb|FL002519.1|FL002519
EST:     AGCACCTCAAGCGCCTCG-CGGCATCGACCTCACCATCCTCTCCGCCCAG                         ATCACGCAATCAACGGACTTCGCAGAGCTTGTGAGCCAGCAGCCATGGCTG
genomic: AGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTG

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: 316

CATGGCGCGCAAGAAGATCCGGGAGTACGACTCCAAGCGCCTCCTCAGGGAGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTGTCAACCATGAAGCTAGTGGTGAAGCCTGATATGCTGTTCGGGAAGCGTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 424

CATGGCGCGCAAGAAGATCCGGGAGTACGACTCCAAGCGCCTCCTCAGGGAGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTGTCAACCATGAAGCTAGTGGTGAAGCCTGATATGCTGTTCGGGAAGCGTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 435

CATGGCGCGCAAGAAGATCCGGGAGTACGACTCCAAGCGCCTCCTCAGGGAGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTGTCAACCATGAAGCTAGTGGTGAAGCCTGATATGCTGTTCGGGAAGCGTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1441

CATGGCGCGCAAGAAGATCCGGGAGTACGACTCCAAGCGCCTCCTCAGGGAGCACCTCAAGCGCCTCGCCGGCATCGACCTCACCATCCTCTCCGCCCAGgtcagtccgt ... ttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTGTCAACCATGAAGCTAGTGGTGAAGCCTGATATGCTGTTCGGGAAGCGTG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtcagatgataataacaagtcaagactgaatttctgtgccttgcttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTGTCAACCATGAAGCTAGTGGTGAAGCCTGATATGCTGTTCGGGAAGCGTG
                                       ccttgctt  CT-rich tract
      atgataataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttccagtcttattctaggactgatgattggacacagtgtcatgtcgtcagatgataataacaagtcaagactgaatttctgtgccttgcttaatgatagATCACGCAATCAACGGACTTCGCGGAGCTTGTGAGCCAGCAGCCATGGCTGTCAACCATGAAGCTAGTGGTGAAGCCTGATATGCTGTTCGGGAAGCGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - -tgatgat
- - - - - - - - - - - - - - -ggacaca
- - - - - - - - - - - - - - - - - - -tgtcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gccttgc