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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtagttgcttctcgcaacgtcacaggctttagatgcaaattatgcctttgattcagcctttgcaatgtcctgacatagtgttgttgtgttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACGCGGCTGTGGTCCTCTCCACGACCAAGACCAAGAAGCAGAATGCCCCAGC

Basic information

species Oryza sativa
transcript LOC_Os02g57540.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g57540.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G394827_T03 (Zea mays), 3'ss of exon 2
-----------------------gtcagtagt-tgcttctcgca-acgtcacaggctttagatgcaaattatgcctttgattca-gcctttgcaatgtcctgacatagtgttgttgtgttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACGCGGCTGTGGTCCTCTCCACGACCAAGACCAAGAAGCAGAATGCCCCAGC---
                        |   | || |  || |||   |  |   |  | |  |||   | | ||     | ||  | | |||||   | | |||   | |   |||| |||||||| ||| ||||||||||||||||| |||||||||||||   ||| || ||||||| |||||||||||||||| || |||||||||||||||||||| || || ||   
gtatgttgcgtccttcaaagtttctggattgtctaattgtcgtgtatatgtaacacctgtgatcttagtaataaaaataataaatggctttgtgct-tactgctctgg--ctgttttgttctgttagGTTTGGCGAACAAGAAGACTGTGACGATCCAGC---CAGCTGCAAAGGACTCGGCTGTGGTCCTCTCTACTACCAAGACCAAGAAGCAGAACGCACCTGCGAA

upper sequence: LOC_Os02g57540.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G088060_T04 (Zea mays), 3'ss of exon 2
gtcagta-gttgcttctcgcaacgtcacaggctttagatgcaaattatgcctttgattcagcctttgcaatgtcc------tgacatagtgttg-------------ttgtgttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACGCGGCTGTGGTCCTCTCCACGACCAAGACCAAGAAGCAGAATGCCCCAGC
    ||| | ||||   | ||  ||  | || || |  |||  |     |   | ||     ||| | |||   |      |||  | ||||||             || | || | | |||||| || |||||||| || || |||||||||||| | | |||||||||| |||||||||||||||| || ||||||||||||||||||||  | || ||
----gtatgctgctctcctca--gtttctggattgatctgcctacagaacaccttatgtgatcttagtaataaacaataaatgattttgtgttgaccgttttgcctgtttttttgtttcagGCTTAGCAAACAAGAAAACTGTAACGATCCAGCCAGCTGCTGGAAAGGACTCGGCTGTGGTCCTCTCTACTACCAAGACCAAGAAGCAGAACACACCCGC
















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|88689121|gb|CI732697.1|CI732697
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88760242|gb|CI769798.1|CI769798
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88391584|gb|CI600773.1|CI600773
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88346738|gb|CI657289.1|CI657289
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88326143|gb|CI651198.1|CI651198
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88690877|gb|CI734956.1|CI734956
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88732363|gb|CI755540.1|CI755540
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88423130|gb|CI613431.1|CI613431
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88691606|gb|CI733684.1|CI733684
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|58603959|gb|CK014487.1|CK014487
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTCCACTCCTACAAGCACTCTG                         GCTTGGCAAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88357145|gb|CI616032.1|CI616032
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|8527907|gb|AU092722.1|AU092722
EST:     CACCAAGGAGCCCAACAACNTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88328803|gb|CI646874.1|CI646874
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88739317|gb|CI762825.1|CI762825
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88216841|gb|CI216443.1|CI216443
EST:     AACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: AACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88308139|gb|CI647966.1|CI647966
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88212593|gb|CI212233.1|CI212233
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88691151|gb|CI735230.1|CI735230
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88349800|gb|CI634335.1|CI634335
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88988453|gb|CI037690.1|CI037690
EST:     CTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88721231|gb|CI744530.1|CI744530
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88734215|gb|CI757723.1|CI757723
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88695072|gb|CI739110.1|CI739110
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88718260|gb|CI741349.1|CI741349
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88762491|gb|CI772047.1|CI772047
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|29686357|gb|CB682632.1|CB682632
EST:     GTTCACTCCTAC-CCCTCTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: GTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|29640294|gb|CB645303.1|CB645303
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88745482|gb|CI768842.1|CI768842
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|33657709|gb|CF280323.1|CF280323
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|86889689|gb|CI299887.1|CI299887
EST:     CAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|58594105|gb|CF992413.1|CF992413
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTCCACTCCTACAAGCACTCTG                         GCTTGGCAAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88324787|gb|CI657659.1|CI657659
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|33655117|gb|CF277731.1|CF277731
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88963485|gb|CI029292.1|CI029292
EST:     GGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: GGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|33795640|gb|CF323690.1|CF323690
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|29640295|gb|CB645304.1|CB645304
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|33810633|gb|CF331203.1|CF331203
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88725065|gb|CI748324.1|CI748324
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|117251389|gb|CT844143.1|CT844143
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTCCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88328788|gb|CI646858.1|CI646858
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|218500537|gb|FG947087.1|FG947087
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTCCACTCCTACAAGCACTCTG                         GCTTGGCAAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|58594577|gb|CF992885.1|CF992885
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTCCAGTCCTACAAGCACTCTG                         GCTTGGCAAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88335145|gb|CI658152.1|CI658152
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88311934|gb|CI577540.1|CI577540
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88691650|gb|CI733728.1|CI733728
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88406482|gb|CI598975.1|CI598975
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88743906|gb|CI765342.1|CI765342
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|33810635|gb|CF331204.1|CF331204
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88733530|gb|CI756707.1|CI756707
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|33660300|gb|CF291267.1|CF291267
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|218498720|gb|FG963989.1|FG963989
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTCCACTCCTACAAGCACTCTG                         GCTTGGCAAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88328097|gb|CI649899.1|CI649899
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88332603|gb|CI651763.1|CI651763
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|15848912|gb|BI797188.1|BI797188
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTCCACTCCTACAAGCACTCTG                         GCTTGGCAAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88400238|gb|CI590928.1|CI590928
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|88399265|gb|CI618455.1|CI618455
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
EST: gi|87030562|gb|CI254991.1|CI254991
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACCAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGAC
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAA-CAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGAC
EST: gi|88406146|gb|CI593926.1|CI593926
EST:     CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTG                         GCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG
genomic: CACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACG

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 1 RNA-Seqlibrary.


Block sizes: 71 (upstream exon), 75 (downstream exon)
Score: 142

AACTGCTTCCTCGTGAAGCAGTTTGGAAACAGCAATGCCAAGGTGCAGTTCACCAAGGAGCCCAACAACCTGTACAATGTTCACTCCTACAAGCACTCTGgtcagtagtt ... gttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACGCGGCTGTGGTCCTCTCCACGACCAAGACCAAGAAGCAGAATGCCCCAGC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcctttgattcagcctttgcaatgtcctgacatagtgttgttgtgttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACGCGGCTGTGGTCCTCTCCACGACCAAGACCAAGAAGCAGAATGCCCCAGC
                         tcctgac  putative branch site (score: 142)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagtagttgcttctcgcaacgtcacaggctttagatgcaaattatgcctttgattcagcctttgcaatgtcctgacatagtgttgttgtgttctgtaagGCTTGGCGAACAAGAAGACCGTGACGATCCAGCCATCAGGTGGAAAGGACGCGGCTGTGGTCCTCTCCACGACCAAGACCAAGAAGCAGAATGCCCCAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC