Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTGCTAAGGAACTTGTAAGATCAAGACGTGCTGTTAATCGTCTTTATGAGAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttttttatgatttttttttgttggtttggtgtctgacgttgtccaagagaatgtccttttaatttctggaagagtgattctgttagttaatat...

Basic information

species Zea mays
transcript GRMZM2G165195_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G165195_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os07g29630.1 (Oryza sativa), 5'ss of exon 3
CTTGCTAAGGAACTTGTAAGATCAAGACGTGCTGTTAATCGTCTTTATGAGAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttttttatgatttttttttgttggtttggtgtctgacgttgtccaagagaatgtccttttaatttctggaagagtgattctgttagttaatat-
|||||||||||||| || || ||||||||||||||||||||||| ||||| |||||||||||||||||||||||||||||||| |||||||||||||| ||||||   ||||| |  || |    || | |   ||  |     |   | ||    ||  | | |   ||      |  |||   | ||   |  | ||  
CTTGCTAAGGAACTAGTGAGGTCAAGACGTGCTGTTAATCGTCTCTATGAAAACAAGGCTCAACTAAATTCAGTATCAATGCATCTTGGAGAAATTGTTGgtatgttctttttctttttatgagctgatagagaggatttattagcaattcagcctaaccttcatcgtatcagcccacaagttcct-tgcaggcaattaca

upper sequence: GRMZM2G165195_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA06G23570.2 (Glycine max), 5'ss of exon 4
CTTGCTAAGGAACTTGTAAGATCAAGACGTGCTGTTAATCGTCTTTATGAGAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttttttatgatttttttttgttggtttggtgtctgacgttgtccaagagaatgtccttttaatttctggaagagtgattc-tgttagttaatat--
||||| ||||||||||| ||||| || |   |||| || || |||||||| ||||| || ||| | |||||| ||||||||||||||||||| | ||| |||| || ||||| ||| ||| ||    ||   ||  | | |  | || |   | | || |    | ||| ||    |   ||| ||  |   || |  |    
CTTGCCAAGGAACTTGTGAGATCTAGGCAAACTGTGAACCGCCTTTATGAAAACAAAGCACAAATGAATTCAATATCAATGCACCTTGGAGAGAGTGTTGgta-ggttttttcatgttttattagccttaacttaattttt--ccttatagcaaataaggattgtctaagttagttacttgtgtttaataccaggttcttgat

upper sequence: GRMZM2G165195_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA11G19930.1 (Glycine max), 5'ss of exon 4
CTTGCTAAGGAACTTGTAAGATCAAGACGTGCTGTTAATCGTCTTTATGAGAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttttttatgatttttttttgttggtttggtgtctgacgttgtccaagagaatgtccttttaatttctggaagagtgattc-tgttagttaatat-
||| ||||||||||||| ||||| ||     | || || ||||||||||| || || || ||| | |||||| ||||||||||||||||||| | ||| |||| || ||||  ||| ||| ||    ||    |  | | || | |  |   | | || | |  | ||| ||    |   ||| ||  |   || |  |   
CTTACTAAGGAACTTGTGAGATCTAGGAAAACGGTGAACCGTCTTTATGAAAATAAAGCACAAATGAATTCAATATCAATGCACCTTGGAGAGAGTGTTGgta-ggtttttccatgttttattagccttaagataat-tttgccttgttaacaaataaggactctctaagttagttacctgtgcttgataccaggtttttga

upper sequence: GRMZM2G165195_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA12G08510.1 (Glycine max), 5'ss of exon 3
CTTGCTAAGGAACTTGTAAGATCAAGACGTGCTGTTAATCGTCTTTATGAGAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttttttatgatttttttttgttg-gtttggtgtctgacgttgtccaagagaatgtccttttaatttctggaagagtgattctgttagttaatat
||||||||||||||||| ||||| ||     | || || ||||||||||| || || || ||| | |||||| ||||||||||||||||||| | ||| |||| || ||||  |||  ||    |  ||  |  | ||  |  |    | |      | |    |     |   ||  |    | ||  | || ||| |  
CTTGCTAAGGAACTTGTGAGATCTAGGAAAACGGTGAACCGTCTTTATGAAAATAAAGCACAAATGAATTCAATATCAATGCACCTTGGAGAGAGTGTTGgta-ggtttttccatgccttaagataattttgccttgtaacaaataaggactctctaagttagttacctgtacttgataccaggttttagataattattcc

upper sequence: GRMZM2G165195_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA04G21900.1 (Glycine max), 5'ss of exon 3
CTTGCTAAGGAACTTGTAAGATCAAGACGTGCTGTTAATCGTCTTTATGAGAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttttttatgatttttttttgttggtttggtgtctgacgttgtccaagagaatgtccttttaatttctggaagagtgattc-tgttagttaatat--
||||||||||||||||| ||||| ||     |||| || ||||||||||| || || || ||| | |||||| ||||||||||||||||||| | ||| |||| || ||||  ||| ||| ||    ||   ||  | | |||| || |   | | || |    | ||| ||    |   ||| ||  |   || |  |    
CTTGCTAAGGAACTTGTGAGATCTAGGAAAACTGTGAACCGTCTTTATGAAAATAAAGCACAAATGAATTCAATATCAATGCACCTTGGAGAGAGTGTTGgta-ggtttttccatgttttgttagccttaacttaat-tttgac-ttatagcaaataaggattgtctaaattagttatttgtgtttagtaccaggttcttgat

upper sequence: GRMZM2G165195_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv06s0061g00540.t01 (Vitis vinifera), 5'ss of exon 4
CTTGCTAAGGAACTTGTAAGATCAAGACGTGCTGTTAATCGTCTTTATGAGAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttttttatgatttttttttgttggtttggtgtctgacgttgtccaagag---aatgtccttttaatt----tctggaagagtgattctgttagttaatat
||||||| |||| |||| ||||| ||| |  | || || |||||| |||| |||||||||||| | |||||  |||||||||||||||| |||| ||| |||| |      |    |    | | | |   | | |    ||    | || || |    ||  |||| | || |     |  | ||||   | |   | ||      
CTTGCTATGGAAATTGTGAGATCTAGAAGAACAGTGAACCGTCTTCATGAAAACAAGGCTCAATTGAATTCTATATCAATGCACCTTGGGGAAAGTGTTGgtaagataacatatctaaacatgtgtatcc-tgttgcacatgttactatctaaaactgcaacttcctctaaaatacatccctgcagagcagtgcctgttgt------

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|211495219|gb|FL000399.1|FL000399
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|211490966|gb|FL175568.1|FL175568
EST:     GAACAAGGCTCAATTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CGACTGCNAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|76010550|gb|DT937720.1|DT937720
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|91052905|gb|EB163323.1|EB163323
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|211496741|gb|FL175598.1|FL175598
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCNAGAACAGTGGGTCATCTGTCCAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAA
EST: gi|211496739|gb|FL175596.1|FL175596
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|211496731|gb|FL175588.1|FL175588
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|91054729|gb|EB165147.1|EB165147
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|148991100|gb|EE032548.2|EE032548
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|211496735|gb|FL175592.1|FL175592
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|71765371|gb|DR963308.1|DR963308
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|211512472|gb|FL332432.1|FL332432
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|32867970|gb|CF007652.1|CF007652
EST:     AACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: AACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|211499621|gb|FL175607.1|FL175607
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|211493851|gb|FL175583.1|FL175583
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|211496742|gb|FL175599.1|FL175599
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|71765372|gb|DR963309.1|DR963309
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|211490965|gb|FL175567.1|FL175567
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|78074982|gb|DV503416.1|DV503416
EST:     CTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: CTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|21331789|gb|BQ487170.1|BQ487170
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|211493849|gb|FL175581.1|FL175581
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|211493848|gb|FL175580.1|FL175580
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|211499622|gb|FL175608.1|FL175608
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTG
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTG
EST: gi|211493850|gb|FL175582.1|FL175582
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|76281952|gb|DV021520.1|DV021520
EST:     AAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: AAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|32867969|gb|CF007651.1|CF007651
EST:     AACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: AACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|211493840|gb|FL175572.1|FL175572
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCNAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATG
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATG
EST: gi|211493845|gb|FL175577.1|FL175577
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|211490962|gb|FL175564.1|FL175564
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGGTCATCTGTCCAAAAGCACTGAAGTGAT
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGG-TCATCTGTCCAAAAGCACTGAAGTGAT
EST: gi|211499616|gb|FL175602.1|FL175602
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|211499626|gb|FL175612.1|FL175612
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCCAGAACAGTGGGTCATCTGTCCAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAA
EST: gi|76010551|gb|DT937721.1|DT937721
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|211499615|gb|FL175601.1|FL175601
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|211493843|gb|FL175575.1|FL175575
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
EST: gi|211493847|gb|FL175579.1|FL175579
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCNAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGA
EST: gi|76933730|gb|DV173563.1|DV173563
EST:     GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCG                         CAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA
genomic: GAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAA

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: 48 (upstream exon), 48 (downstream exon)
Score: 169

CTTGCTAAGGAACTTGTAAGATCAAGACGTGCTGTTAATCGTCTTTATGAGAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAATTGTTAACAATCTAATGAAAGCTCCAGAGTTGGCTACCACGATGCAAGA


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 135

CTTGCTAAGGAACTTGTAAGATCAAGACGTGCTGTTAATCGTCTTTATGAGAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAATTGTTAACAATCTAATGAAAGCTCCAGAGTTGGCTACCACGATGCAAGA


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 182

CTTGCTAAGGAACTTGTAAGATCAAGACGTGCTGTTAATCGTCTTTATGAGAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAATTGTTAACAATCTAATGAAAGCTCCAGAGTTGGCTACCACGATGCAAGA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 196

CTTGCTAAGGAACTTGTAAGATCAAGACGTGCTGTTAATCGTCTTTATGAGAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttt ... caattttcagCAACTGCAAGAACAGTGGGTCATCTGTCCAAAAGCACTGAAGTGATGAAAATTGTTAACAATCTAATGAAAGCTCCAGAGTTGGCTACCACGATGCAAGA


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTGCTAAGGAACTTGTAAGATCAAGACGTGCTGTTAATCGTCTTTATGAGAACAAGGCTCAACTAAATTCAGTATCAATGCACCTTGGAGAAATTGTCGgtatggcttttttatgatttttttttgttggtttggtgtctgacgttgtccaagagaatgtccttttaatttctggaagagtgattctgttagttaatat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caagagaa