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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggaactttttttttgagtcccaatcatttttcaccatgtttgtgcttggtatgttatttgttttccacaaatattttgatggctaagttttgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGCTATGCTAATGCAAAAATCTACAAATGTGAGGATGACAGATGTCCACGAC

Basic information

species Zea mays
transcript GRMZM2G117900_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G117900_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os12g07740.1 (Oryza sativa), 3'ss of exon 3
-----ggaactttttttttgagtcccaatcatttttcaccatgtttgtgcttggtatgttatttgttttccacaaatattttgatggctaagttttgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGCTATGCTAATGCAAAAATCTACAAATGTGAGGATGACAGATGTCCACGAC
      |||| | |||  |   |   | | || ||   |      |||  ||  ||| ||  |   |||  | |  | |  ||||| ||   || ||  |||||||| ||||| ||||||||||||||||| |||||||| ||||||||||| |||||||||||||| ||||||||||||||||| || || | |||||||||||
gttcatgaacatctttcatatttagtatttatgttcttc---acatgtaattcatatatttata--tttgtatagttgtcctgatgtcttccttgtgatttgtagACCGTTCGCTTCAAGAATGAGCTGGAGCGTAACATCACTATAAAGCTTGGCTATGCTAATGCGAAAATCTACAAATGTGAAGACGAGAAATGTCCACGAC

upper sequence: GRMZM2G117900_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os12g41400.1 (Oryza sativa), 3'ss of exon 3
ggaactttttttttgagt--cccaatcatttttcaccatgtttgtgcttggtatg----ttatttgttttccacaaata-ttttgatggctaagttttgccttgt--agACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGCTATGCTAATGCAAAAATCTACAAATGTGAGGATGACAGATGTCCACGAC
         || ||||    | ||||| ||||| |  |||| ||| |||  ||||     | ||| |||     | ||| || ||||  ||   || ||  ||||  |||||||||| ||||||||||||||||| |||||||| ||||||||||| || ||||||||||| ||||||||||||||||| || || | ||| |||||||
--------gttgttgaactgctcaatcgttttt-agtatgtatgtacttcatatgcaatctgtttatttgttttatatagttctgatttcttccttgtgatttgtacagACTGTTCGCTTCAAGAATGAGCTGGAGCGTAACATCACTATAAAGCTTGGTTATGCTAATGCGAAAATCTACAAATGTGAAGACGAGAAATGCCCACGAC

upper sequence: GRMZM2G117900_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA08G18240.2 (Glycine max), 3'ss of exon 3
---------ggaactttttttttgagtcccaatcatttttcaccatgtttgtgcttggtatgttatttgttttccacaaatattttgatggctaagttttgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGCTATGCTAATGCAAAAATCTACAAATGTGAGGATGACAGATGTCCACGAC
          | | |   | ||| | ||  |||       ||   | |||  |||| | || || |    | |  ||   | || |    |  ||    ||   || ||||||| || ||||| |||||| |||| ||||||||||| || ||||| |||||||| ||||||||||| ||||| ||||| |||||  |||||||| | |
ttatacataagcattccatcttttattcttaata----cacattttcttttagctttggatatt-tacactgttgacctgtgttgtttccgtgaa----tgttgtgcagACTGTGCGTTTCAAAAATGAGTTGGAGCGTAACATTACAATCAAGCTTGGCTATGCAAATGCAAAAATATACAAGTGTGAAGATGAACGATGTCCAAGGC

upper sequence: GRMZM2G117900_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA15G40750.1 (Glycine max), 3'ss of exon 3
---------ggaactttttttttgagtcccaatcatttttcaccatgtttgtgcttggtatgttatttgttttccacaaatattttgatggctaagttttgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGCTATGCTAATGCAAAAATCTACAAATGTGAGGATGACAGATGTCCACGAC
          | |     | | | | ||   ||     ||| ||  ||| |   | | ||| | |  ||||  || |   | |||| |||    | | |||   || ||||||| || ||||| |||||| |||| ||||||||||| || ||||| |||||||||||||||||||| ||||| ||||| |||||  | |||||| | |
ttacacgtaagcatgccatatattattcttcatacacattctcc--gttagccttggatatttaaactgttgacctctgttgttttcatg----aatgttg---tgcagACTGTGCGTTTCAAAAATGAGTTGGAGCGTAACATTACAATCAAGCTTGGCTATGCTAATGCAAAAATATACAAGTGTGAAGATGAACGGTGTCCAAGGC

upper sequence: GRMZM2G117900_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv13s0074g00310.t01 (Vitis vinifera), 3'ss of exon 3
---ggaactttttttttgagtcccaatcatttttcaccatgtttgtgcttggtatgttatttgttttccacaaatattttgatggctaagttttgcct---tgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGCTATGCTAATGCAAAAATCTACAAATGTGAGGATGACAGATGTCCACGAC
   |||          ||   |  | ||||  |  |     |||||      |||  ||| || ||    |  | |  | |     || | ||||  |   |  |||||||||| || || ||||||||||| || || |||||||| || || || ||||| |||||||| || ||||||||||| |||||  | || || || |
ttaggagaca-----gtggaccatagtcatcctctagttattttgttaagaatat-ctatatgcttagatctgaaaggtggccctttatgatttgtttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGAAATATTACTATCAAACTTGGATATGCAAATGCAAAGATATACAAATGTGAAGATGAACGGTGCCCTCGTC

upper sequence: GRMZM2G117900_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 2
-ggaactttttttttgagtcccaatcatttttcaccatgtttgtgcttggtatgttatttgttttccacaaatattttgatggctaagttttgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGCTATGCTAATGCAAAAATCTACAAATGTGAGGATGACAGATGTCCACGAC
  |||  |  ||    |     |  |  |  | ||  ||||     |   ||      ||   |   | |  |   |   |       | ||    |  |||||||||| || || ||||||||||| || ||||||||||| || || || ||||| ||||| || || ||||||||||| |||||  | || || ||||
tagaagatggttgaccatagtaatcctctaattactttgttaaaaatatttacag-gcttaaatctgaaaggtgggtcctttatggtttatttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGCAACATTACTATCAAACTTGGATATGCAAATGCCAAGATATACAAATGTGAAGATGAACGGTGCCCTCGAC

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|211366434|gb|FL064277.1|FL064277
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211366429|gb|FL064272.1|FL064272
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|148932915|gb|EE285716.2|EE285716
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211369085|gb|FL064283.1|FL064283
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211366427|gb|FL064270.1|FL064270
EST:     ATGTGGCTCATGBAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211363769|gb|FL064256.1|FL064256
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|32932475|gb|CF037287.1|CF037287
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|67038206|gb|CO464536.1|CO464536
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211366433|gb|FL064276.1|FL064276
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211363771|gb|FL064258.1|FL064258
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211366430|gb|FL064273.1|FL064273
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211369089|gb|FL064287.1|FL064287
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|148952113|gb|EC897906.2|EC897906
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211363774|gb|FL064261.1|FL064261
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211369090|gb|FL064288.1|FL064288
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211369087|gb|FL064285.1|FL064285
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|32944740|gb|CF049559.1|CF049559
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|58029454|gb|CX724881.1|CX724881
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211366425|gb|FL064268.1|FL064268
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211366421|gb|FL064264.1|FL064264
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGA
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGA
EST: gi|211369088|gb|FL064286.1|FL064286
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211366431|gb|FL064274.1|FL064274
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|71449155|gb|DR830205.1|DR830205
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211366424|gb|FL064267.1|FL064267
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211369081|gb|FL064279.1|FL064279
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|32910958|gb|CF015770.1|CF015770
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211366428|gb|FL064271.1|FL064271
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211363772|gb|FL064259.1|FL064259
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211366423|gb|FL064266.1|FL064266
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211369086|gb|FL064284.1|FL064284
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211363773|gb|FL064260.1|FL064260
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|32945952|gb|CF050771.1|CF050771
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGTTGTTTTTTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211369080|gb|FL064278.1|FL064278
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211369083|gb|FL064281.1|FL064281
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211363770|gb|FL064257.1|FL064257
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211366432|gb|FL064275.1|FL064275
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
EST: gi|211366426|gb|FL064269.1|FL064269
EST:     ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAG                         ACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC
genomic: ATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGC

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: 44 (upstream exon), 49 (downstream exon)
Score: 427

GTACCATTGGCCATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGCTATGCTAATGCAAAAATCTACAAATGTGAGGATGACAGATGTCCACGAC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 353

GTACCATTGGCCATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGCTATGCTAATGCAAAAATCTACAAATGTGAGGATGACAGATGTCCACGAC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 323

GTACCATTGGCCATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGCTATGCTAATGCAAAAATCTACAAATGTGAGGATGACAGATGTCCACGAC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 264

GTACCATTGGCCATGTGGCTCATGGAAAGTCTACTGTTGTGAAGGCTATATCCGGAGTTCAGgtgtgattca ... tgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGCTATGCTAATGCAAAAATCTACAAATGTGAGGATGACAGATGTCCACGAC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggtatgttatttgttttccacaaatattttgatggctaagttttgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGCTATGCTAATGCAAAAATCTACAAATGTGAGGATGACAGATGTCCACGAC
                            ttttgat  putative branch site (score: 264)
                                          ttttgcctt  putative PPT
     atgttatttgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggaactttttttttgagtcccaatcatttttcaccatgtttgtgcttggtatgttatttgttttccacaaatattttgatggctaagttttgccttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGCTATGCTAATGCAAAAATCTACAAATGTGAGGATGACAGATGTCCACGAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG