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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACAAGTTTGTCTTCTGGTACACGCGCCGAACACCTGGAGTTCGAAATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctttgctttgttgatgcttgtagttgaatctgagttcatacttcattacaaattttcttaccttgttgatttcgtgattgtatgtattaatag

Basic information

species Glycine max
transcript GLYMA16G27010.3
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G27010.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv08s0007g07290.t01 (Vitis vinifera), 5'ss of exon 2
CACAAGTTTGTCTTCTGGTACACGCGCCGAACACCTGGAGTTCGAAATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctttgctttgttg---atgcttgtagt----tgaatctgagttca--tacttcattacaaattttcttaccttg-ttgatttcgtgattgtatgtattaatag--------------
||||||||||| || |||||||| || |||||||||||||||||||  |||||||||||||||||||| |||||||||||||| || || ||||| || || | ||    | ||     |||| |  |||    |||||   | |  |  ||  ||| |   ||||| |||   |||    |||  ||   | ||  | || | |               
CACAAGTTTGTATTTTGGTACACTCGTCGAACACCTGGAGTTCGAACCCAAACATCATACGAGGACAATATAAAGAAAATTGTGGATTTCAGTACAgtaagattttcttctagtacggcatgcctagagtgtgatgaatgaaaatctagttatgtcaatgtgaatttacttttgttggcccattgtgttgatctagattttgaaaattatatgtacctag
















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|151402667|gb|EV272480.1|EV272480
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|298169920|gb|HO018544.1|HO018544
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATT-AGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|209710160|gb|BW681072.1|BW681072
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|58017961|gb|CX704703.1|CX704703
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|298175937|gb|HO015342.1|HO015342
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|58020447|gb|CX707189.1|CX707189
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|298187572|gb|HO034721.1|HO034721
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|37994217|gb|CF805963.1|CF805963
EST:     ATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|151394261|gb|EV264132.1|EV264132
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|298171093|gb|HO016125.1|HO016125
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|298180018|gb|HO025233.1|HO025233
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|7478427|gb|AW666261.1|AW666261
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|19269428|gb|BM885684.1|BM885684
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|14991741|gb|BI317414.1|BI317414
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAACGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|8283787|gb|BE021346.1|BE021346
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|17022976|gb|BM094010.1|BM094010
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|19346443|gb|BM891323.1|BM891323
EST:     ATCAAACATCATACTATGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|37997491|gb|CF809080.1|CF809080
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|192305689|gb|FG998039.1|FG998039
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|58021292|gb|CX708033.1|CX708033
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|298193673|gb|HO040321.1|HO040321
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|57575959|gb|CX548930.1|CX548930
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|192299481|gb|FG990790.1|FG990790
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|192295554|gb|FG988128.1|FG988128
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGACTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|21677127|gb|BQ629478.1|BQ629478
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|298166699|gb|HO010138.1|HO010138
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCCCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|13789026|gb|BG651617.1|BG651617
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|4397610|gb|AI496607.1|AI496607
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATNTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|151413065|gb|EV282873.1|EV282873
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|37995997|gb|CF807586.1|CF807586
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|254329998|gb|GR839551.1|GR839551
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|192326201|gb|FK016288.1|FK016288
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCGTCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
EST: gi|213611709|gb|DB960637.1|DB960637
EST:     ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACG                         GTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA
genomic: ATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctt ... gtattaatagGTTGAAGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCCGCTTCTTTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CACAAGTTTGTCTTCTGGTACACGCGCCGAACACCTGGAGTTCGAAATCAAACATCATACGAGGACAACATAAAGAAAATTGTTGAATTTAGTACGgtgaggtctttgctttgttgatgcttgtagttgaatctgagttcatacttcattacaaattttcttaccttgttgatttcgtgattgtatgtattaatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA