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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAGGGCAGAGTCCATGGTATGATAATCTCTGCAGACCTGTTACAGACCTTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataatttttttcttttctttgggtgttgttccccatgtgtagatattgctaataatgcagaaatcaaaaccgattaatgtttcaaacacttattctgagttataacatcttgctttaaaattgcttgttatagtattctaaactgctgtctgtatatgtgattgcag

Basic information

species Glycine max
transcript GLYMA08G47790.3
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G47790.3 (Glycine max), 5'ss of exon 2
lower sequence: AT5G13420.1 (Arabidopsis thaliana), 5'ss of exon 2
AGAAGGGCAGAGTCCATGGTATGATAATCTCTGCAGACCTGTTACAGACCTTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataatttttttcttttctttgggtgttgttccccatgtgtagatattgctaataatgcagaaatcaaaaccgattaatgtttcaaacacttattctgagttataacatcttgctttaaaattgcttgttatagtattctaaactgctgtctgtatatgtgattgcag
 ||||| |||||||| |||||||||||||| ||| | || || ||||| ||||| ||  | || ||  ||||||| ||||| || ||||||||||||||||||||  | |  |   | | | || || | |||   | | ||      |   |  |  | ||    ||   ||   || |  ||| | ||| ||                                                                            
GGAAGGTCAGAGTCCTTGGTATGATAATCTTTGCCGTCCAGTCACAGATCTTCTCCCGTTGATTGCTCGTGGTGTTAGAGGTGTTACTAGCAACCCTGCGgtaattttatcatctctctttgtgtgtttggttttgcttttgc-----tctgtgtttgttcatttgtctttacttcttcactttttatacatttgcag------------------------------------------------------------------------

upper sequence: GLYMA08G47790.3 (Glycine max), 5'ss of exon 2
lower sequence: Vv01s0150g00190.t01 (Vitis vinifera), 5'ss of exon 2
AGAAGGGCAGAGTCCATGGTATGATAATCTCTGCAGACCTGTTACAGACCTTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataatttttttcttttctttgggtgttgttccccatgtgtagatattgctaataatgcagaaatcaaaaccgattaatgtttcaaacacttattctgagttataacatcttgctttaaaattgcttgttatagtattctaaactgctgtctgtatatgtgattgcag
 | ||||||||| |||||||||||||| |||||||| |||||||| || || ||||| || || ||||||||||||||||| || ||||||||||| |||||||| |    |  ||||| | |   | |  ||     |       | || | |    ||  ||    |   |   | |  ||   ||  |   |    ||                                                                     
GGGAGGGCAGAGCCCATGGTATGATAACCTCTGCAGGCCTGTTACCGATCTCCTTCCACTGATTGCAAGTGGTGTCAGAGGTGTAACTAGCAACCCAGCGgtaattacacataccttttttcttattctctttggttcttccc--ctgttccaacaggtgtggaggatatttcttttgatagtagaaaggaaagagggggaa--------------------------------------------------------------------
















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|151412865|gb|EV282677.1|EV282677
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTACCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|17153408|gb|BM143341.1|BM143341
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|213587880|gb|DB959704.1|DB959704
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|26059043|gb|CA801957.1|CA801957
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|18692732|gb|BM521580.1|BM521580
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|6481766|gb|AW201037.1|AW201037
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|213591047|gb|DB973788.1|DB973788
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGCCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|254315550|gb|GR825359.1|GR825359
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|6133795|gb|AW132188.1|AW132188
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|19453272|gb|BM954682.1|BM954682
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|9439831|gb|BE440344.1|BE440344
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         AGTTGTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|254346140|gb|GR859753.1|GR859753
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|254336110|gb|GR841435.1|GR841435
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|8283342|gb|BE020903.1|BE020903
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|5126502|gb|AI748238.1|AI748238
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|16106060|gb|BI893800.1|BI893800
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|15813619|gb|BI785894.1|BI785894
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|9565717|gb|BE475226.1|BE475226
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|11688467|gb|BF596143.1|BF596143
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|18039782|gb|BM308076.1|BM308076
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|19936998|gb|BQ081103.1|BQ081103
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|41146374|gb|CK606585.1|CK606585
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|192309107|gb|FG999390.1|FG999390
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|16347482|gb|BI973077.1|BI973077
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|19271012|gb|BM887268.1|BM887268
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|209710574|gb|BW676526.1|BW676526
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|209718567|gb|BW662685.1|BW662685
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|254326716|gb|GR832868.1|GR832868
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|16996699|gb|BM086071.1|BM086071
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|17022331|gb|BM093365.1|BM093365
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|254322565|gb|GR837979.1|GR837979
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
EST: gi|22540587|gb|BU090430.1|BU090430
EST:     TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCG                         ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG
genomic: TTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataattt ... gtgattgcagATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAAGGGCAGAGTCCATGGTATGATAATCTCTGCAGACCTGTTACAGACCTTCTTCCTCTTATAGCAAGTGGTGTCAGAGGCGTCACTAGCAACCCTGCGgtaataatttttttcttttctttgggtgttgttccccatgtgtagatattgctaataatgcagaaatcaaaaccgattaatgtttcaaacacttattctgagttataacatcttgctttaaaattgcttgttatagtattctaaactgctgtctgtatatgtgattgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG