Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCAACCCTTATTTTTGAGGTGGAGCTAGTAGCTTGCAGGCCGAGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatctcctatcattccatctttaacatatagcacagaaaaaatcagttattatatgatttagcacaactgtacatgttccctcgagtgaactct...

Basic information

species Zea mays
transcript GRMZM2G035922_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G035922_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os05g38370.1 (Oryza sativa), 5'ss of exon 5
TGCAACCCTTATTTTTGAGGTGGAGCTAGTAGCTTGCAGGCCGAGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatctcctatcattccatctttaacat-atagcacagaaaaaatcagttattatatgatttagcacaactgtacatgttccctcgagtgaactct
|||||| || ||||||||||||||| |||| ||||| ||||| ||||||||||||||| | || ||||| ||||||||||||||||| || ||||||||  | | | |   |    |  |||  || | |  |  |||     |||||||||| | |  ||||||| ||||||| | | |    |      |  
TGCAACACTCATTTTTGAGGTGGAGTTAGTGGCTTGTAGGCCTAGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgttttcaaatgtcttcttgttatgattacaatat-gaagttcccagttattatgttaaatagcacagctgtacaagatacagaaaactggttaa

upper sequence: GRMZM2G035922_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os05g38370.3 (Oryza sativa), 5'ss of exon 4
-------TGCAACCCTTATTTTTGAGGTGGAGCTAGTAGCTTGCAGGCCGAGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatctcctatcattccatctttaacat-atagcacagaaaaaatcagttattatatgatttagcacaactgtacatgttccctcgagtgaactct
       |||||| || ||||||||||||||| |||| ||||| ||||| ||||||||||||||| | || ||||| ||||||||||||||||| || ||||||||  | | | |   |    |  |||  || | |  |  |||     |||||||||| | |  ||||||| ||||||| | | |    |      |  
TTTGCAGTGCAACACTCATTTTTGAGGTGGAGTTAGTGGCTTGTAGGCCTAGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgttttcaaatgtcttcttgttatgattacaatat-gaagttcccagttattatgttaaatagcacagctgtacaagatacagaaaactggttaa

upper sequence: GRMZM2G035922_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv13s0019g01900.t01 (Vitis vinifera), 5'ss of exon 5
TGCAACCCTTATTTTTGAGGTGGAGCTAGTAGCTTGCAGGCCGAGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc--tcctatcattccatctttaacatatagcacagaaaaaatcagttattatatgatttagcacaactgtacatgttccctcgagtgaactct---
|||||||||| |||||||||||||| | ||||| |||||||| ||||| ||||||||| |  ||||||| ||||||||||  || || |||||||||| |||   | |||||| ||  |  ||   ||        ||   |  || |   || |      ||||  |   | |||||     | | |      |   
TGCAACCCTTGTTTTTGAGGTGGAGTTGGTAGCCTGCAGGCCAAGGAAGGGTTCAAGCATCAGTAGTGTTTCTGATGAGAGGGCTAGGCTTGAgtaagtcattatttctatcaatcgtttcttctaatgcttttgtgatttacccattc--taaaaagagcagcatgatgatccatgtcaaaaccattttttaatcag

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|18166825|gb|BM336664.1|BM336664
EST:     GGAAAGGTTCAAGCTTAGGTAGTGTAGTCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: GGAAAGGTTCAAGCTTAGGTAGTGTA-TCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|17929588|gb|BM266548.1|BM266548
EST:     AGGAAAGGTTCCAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18163235|gb|BM333074.1|BM333074
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|17932547|gb|BM269507.1|BM269507
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18167673|gb|BM337513.1|BM337513
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18172971|gb|BM348359.1|BM348359
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|19769925|gb|BQ034646.1|BQ034646
EST:     AGGAAAGGTTCAAGCTTAGGCAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18171734|gb|BM341574.1|BM341574
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18167853|gb|BM337693.1|BM337693
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18167661|gb|BM337501.1|BM337501
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18166622|gb|BM336461.1|BM336461
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|28985465|gb|CB350653.1|CB350653
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18167256|gb|BM337095.1|BM337095
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|31405694|gb|CD484426.1|CD484426
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18167472|gb|BM337311.1|BM337311
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|17930689|gb|BM267649.1|BM267649
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGATAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18171573|gb|BM341413.1|BM341413
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18169983|gb|BM339823.1|BM339823
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|17930535|gb|BM267495.1|BM267495
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18162285|gb|BM332124.1|BM332124
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18172791|gb|BM348179.1|BM348179
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|17931579|gb|BM268539.1|BM268539
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18164877|gb|BM334716.1|BM334716
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|17932007|gb|BM268967.1|BM268967
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18170971|gb|BM340811.1|BM340811
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18165652|gb|BM335491.1|BM335491
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|71309373|gb|DR790976.1|DR790976
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATTTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTTCCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18162258|gb|BM332097.1|BM332097
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|211411852|gb|FL441860.1|FL441860
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18174284|gb|BM349672.1|BM349672
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18175023|gb|BM350411.1|BM350411
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18164162|gb|BM334001.1|BM334001
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18179153|gb|BM380363.1|BM380363
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|28986608|gb|CB351220.1|CB351220
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18166287|gb|BM336126.1|BM336126
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18166847|gb|BM336686.1|BM336686
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18170403|gb|BM340243.1|BM340243
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18167659|gb|BM337499.1|BM337499
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|27521988|gb|CA989094.1|CA989094
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|17929699|gb|BM266665.1|BM266665
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18161978|gb|BM331817.1|BM331817
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18167933|gb|BM337773.1|BM337773
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18167782|gb|BM337622.1|BM337622
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18167366|gb|BM337205.1|BM337205
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18174797|gb|BM350185.1|BM350185
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18167121|gb|BM336960.1|BM336960
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|28985498|gb|CB350669.1|CB350669
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18174118|gb|BM349506.1|BM349506
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|17932291|gb|BM269251.1|BM269251
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|17931043|gb|BM268003.1|BM268003
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18163876|gb|BM333715.1|BM333715
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|17931951|gb|BM268911.1|BM268911
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18172840|gb|BM348228.1|BM348228
EST:     CTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: CTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18170193|gb|BM340033.1|BM340033
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18171321|gb|BM341161.1|BM341161
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|16922800|gb|BM075792.1|BM075792
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18176078|gb|BM351162.1|BM351162
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18172782|gb|BM348170.1|BM348170
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|4775927|gb|AI664930.1|AI664930
EST:     AGGAAAGGTTCAAGCTTAGGCAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|17929924|gb|BM266884.1|BM266884
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|16922351|gb|BM075537.1|BM075537
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|211184198|gb|FL244917.1|FL244917
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAG
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAG
EST: gi|18175689|gb|BM350910.1|BM350910
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18169174|gb|BM339014.1|BM339014
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|18164591|gb|BM334430.1|BM334430
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|12969846|gb|BG266686.1|BG266686
EST:     AGGAAAGGTTCAAGCTTAGGCAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
EST: gi|28986296|gb|CB351065.1|CB351065
EST:     AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGA                         AGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA
genomic: AGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAA

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 2 RNA-Seq libraries.


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 11

TGCAACCCTTATTTTTGAGGTGGAGCTAGTAGCTTGCAGGCCGAGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAAAAAGAAGAGGGAGGAAGCGAAGGCCGCGGCAGCAGCCCGGGTGCAAGCA


Block sizes: 42 (upstream exon), 45 (downstream exon)
Score: 3

TGCAACCCTTATTTTTGAGGTGGAGCTAGTAGCTTGCAGGCCGAGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatc ... atctgtgcagAGAACTTAAGAAGCAACGGGAGCTAGCTGCTGCTACCAAAGAAGAGGAGAAAAAGAAGAGGGAGGAAGCGAAGGCCGCGGCAGCAGCCCGGGTGCAAGCA




<









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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCAACCCTTATTTTTGAGGTGGAGCTAGTAGCTTGCAGGCCGAGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatctcctatcattccatctttaacatatagcacagaaaaaatcagttattatatgatttagcacaactgtacatgttccctcgagtgaactct

- - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT