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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcttttatatataatgttcttgcttgcattttgtttgttgttaaaagcctgcttgcagatcctataattgtgttcttctcatctatctcttctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGACTACCCAGAAAAGCCCCCAAGTGTTCGGTTTCATTCACGAGTCAACATGA

Basic information

species Glycine max
transcript GLYMA10G09280.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G09280.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0007g02580.t01 (Vitis vinifera), 3'ss of exon 2
tcttttatatataatgttcttgcttgcattttgtttgttg-ttaaaagcctgcttgcagatcctataattgtgttcttctcatctatctc-ttctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGACTACCCAGAAAAGCCCCCAAGTGTTCGGTTTCATTCACGAGTCAACATGA
  |   ||  |   |  | ||| |    |||||  | |||  |    ||     || | | | || ||     ||    || |||   |  || | | ||||||||||||||||||  | || ||||| ||||||||||| ||||| ||||| || ||||| ||||| |||||||| || |||||||||||  |||||||||
--tagaatgaaatgtactattgttgaggttttggattttgacttcttgctgatatggatagcttacaagcacattacaatcttctcctttattttttttcagACTGTACATGAAGGTCGCATATATCAGTTGAAGCTGTTCTGTGACAAAGATTATCCAGAGAAGCCACCAAGTGTCCGTTTTCATTCACGGATCAACATGA
















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|8827200|gb|BE210930.1|BE210930
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|192294086|gb|FG986175.1|FG986175
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|13563351|gb|BG551571.1|BG551571
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|192328578|gb|FK023568.1|FK023568
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|17022747|gb|BM093781.1|BM093781
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|15662585|gb|BI699948.1|BI699948
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|21677270|gb|BQ629621.1|BQ629621
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|7690948|gb|AW759084.1|AW759084
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|7284283|gb|AW596878.1|AW596878
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|15664086|gb|BI701457.1|BI701457
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|209710536|gb|BW662072.1|BW662072
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|151393123|gb|EV262998.1|EV262998
EST:     ATGACATTTACATGCGCTCTTGGACTGGCGCCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|192307166|gb|FK001194.1|FK001194
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCCGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|209724946|gb|BW669636.1|BW669636
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|207841754|gb|GD813638.1|GD813638
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTAGAAAGACTAGTTTTAGTGATA
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATT-GAA-G-CT-GTTTT-GTGATA
EST: gi|4314038|gb|AI461157.1|AI461157
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|209724945|gb|BW669635.1|BW669635
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|27808883|gb|CB063305.1|CB063305
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|192307167|gb|FK001195.1|FK001195
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCCGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|23733678|gb|BU765045.1|BU765045
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|6482623|gb|AW201868.1|AW201868
EST:     GCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: GCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|6847781|gb|AW350071.1|AW350071
EST:     ATGACATTTACATGCGNNCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|7283899|gb|AW596500.1|AW596500
EST:     TGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: TGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|209724423|gb|BW662954.1|BW662954
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|254339698|gb|GR857823.1|GR857823
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|208206857|gb|GE002550.1|GE002550
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACGATTATTGGCCCC-ATAAT                         ACTGTACAATGAAGGAAGAATTT
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACA-TGAAGGAAGAATTT
EST: gi|192294192|gb|FG986281.1|FG986281
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|18041024|gb|BM309318.1|BM309318
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|27426289|gb|CA937809.1|CA937809
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|254339699|gb|GR857824.1|GR857824
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|192328579|gb|FK023569.1|FK023569
EST:     CATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: CATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
EST: gi|209699481|gb|BW667669.1|BW667669
EST:     ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAAT                         ACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC
genomic: ATGACATTTACATGCGCTCTTGGACTGGCACCATTATTGGCCCCCATAATgtaagtattt ... tctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcctgcttgcagatcctataattgtgttcttctcatctatctcttctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGACTACCCAGAAAAGCCCCCAAGTGTTCGGTTTCATTCACGAGTCAACATGA
                      ttgtgttcttctcatc  CT-rich tract
                 tataattgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcttttatatataatgttcttgcttgcattttgtttgttgttaaaagcctgcttgcagatcctataattgtgttcttctcatctatctcttctctgtcagACTGTACATGAAGGAAGAATTTATCAATTGAAGCTGTTTTGTGATAAAGACTACCCAGAAAAGCCCCCAAGTGTTCGGTTTCATTCACGAGTCAACATGA

- - - - - - - - - - -gcttgca
- - - - - - - - - - - - - - - -tgtttgt