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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatattaaaaggaaaaataaaataattttttttggtctcatatgttaataattctctaattgttcttaaattgctaaaatcatattattcaatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGTAGTGAAGGATATCCAAGATGCTTGCAAATTATTTGAACCAATCTATGAT

Basic information

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

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G47790.3 (Glycine max), 3'ss of exon 3
lower sequence: AT5G13420.1 (Arabidopsis thaliana), 3'ss of exon 3
---------------gatattaaa---aggaaaaataaaataattttttttggtctcatatgttaataattctct-aattgttcttaaat-tgctaaaatcatattattcaatcatg--cagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGTAGTGAAGGATATCCAAGATGCTTGCAAATTATTTGAACCAATCTATGAT
                 | ||| |     |     ||| |  ||  | ||    ||     |||  |  || | | ||  ||| |   || || |||    |||     ||  ||     |||  ||||||| || | || || |||||||||||||| |||||||||||||| ||||||||||| || ||||| |||||| | ||||| ||||||||||| 
gtatctttttgtgattgtcttagacttgtggttgttaacaacatgctattaaaactttagagttcttctttatatgaaaagttgtctgatatgttaatggtatacctgacatgcactattagGACACTTGTGGAATCGGGAAAGGACATTGAAAGTGCGTATTGGGAACTTGTGGTGAAGGATATTCAGGATGCCTGCAAACTTTTTGAGCCAATCTATGAC

upper sequence: GLYMA08G47790.3 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0150g00190.t01 (Vitis vinifera), 3'ss of exon 3
--gatattaaaaggaaaaataaaataattttttttggtctcatatgttaataattctctaattgttcttaaattgctaaaatcatattattcaatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGTAGTGAAGGATATCCAAGATGCTTGCAAATTATTTGAACCAATCTATGAT
  | ||||          |  |  |    |    |   || | ||   | |   ||  | |  |||  |||||     |  | | |   ||  ||  |||||||||||||| | |||||| |||||||||||||||||||| ||||| ||||| |||||||| ||||||||||| |||| | | ||||| ||||||||||||
tagttattctgctcttgcaggacctggaatccaata--ctaacatccgagttgatccttcagagttggtaaatctaacattttaaacctttggattctgcagGGAACTTGTACTAGCAGGAAAAGACATTGAAAGTGCATACTGGGAGCTTGTGGTGAAGGACATCCAAGATGCGTGCAGACTTTTTGAGCCAATCTATGAT
















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:     ATTTTTCAGAAAGCTACCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|17153408|gb|BM143341.1|BM143341
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|213587880|gb|DB959704.1|DB959704
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|26059043|gb|CA801957.1|CA801957
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|18692732|gb|BM521580.1|BM521580
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|6481766|gb|AW201037.1|AW201037
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|213591047|gb|DB973788.1|DB973788
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|254315550|gb|GR825359.1|GR825359
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|6133795|gb|AW132188.1|AW132188
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|19453272|gb|BM954682.1|BM954682
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|9439831|gb|BE440344.1|BE440344
EST:     AGTTGTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|254346140|gb|GR859753.1|GR859753
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|254336110|gb|GR841435.1|GR841435
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|8283342|gb|BE020903.1|BE020903
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|5126502|gb|AI748238.1|AI748238
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGNGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|16106060|gb|BI893800.1|BI893800
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|15813619|gb|BI785894.1|BI785894
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|9565717|gb|BE475226.1|BE475226
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|11688467|gb|BF596143.1|BF596143
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|18039782|gb|BM308076.1|BM308076
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|19936998|gb|BQ081103.1|BQ081103
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|41146374|gb|CK606585.1|CK606585
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|192309107|gb|FG999390.1|FG999390
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|16347482|gb|BI973077.1|BI973077
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|19271012|gb|BM887268.1|BM887268
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|209710574|gb|BW676526.1|BW676526
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|209718567|gb|BW662685.1|BW662685
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|308098290|gb|HO760031.1|HO760031
EST:     TCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: TCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|254326716|gb|GR832868.1|GR832868
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|16996699|gb|BM086071.1|BM086071
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|17022331|gb|BM093365.1|BM093365
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|254322565|gb|GR837979.1|GR837979
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
EST: gi|22540587|gb|BU090430.1|BU090430
EST:     ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAG                         GGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT
genomic: ATTTTTCAGAAAGCTATCTCATCATCGAATGCTTACAATGATCAGTTCAGgtaccatcaa ... aatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taataattctctaattgttcttaaattgctaaaatcatattattcaatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGTAGTGAAGGATATCCAAGATGCTTGCAAATTATTTGAACCAATCTATGAT
                          tgctaaa  putative branch site (score: 2)
                    ttaaattgctaaaatc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gatattaaaaggaaaaataaaataattttttttggtctcatatgttaataattctctaattgttcttaaattgctaaaatcatattattcaatcatgcagGGAACTTGTGCAAGCAGGGAAAGACATTGAAAGTGCATATTGGGAACTTGTAGTGAAGGATATCCAAGATGCTTGCAAATTATTTGAACCAATCTATGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - -gaaaaat
- - - - - - -aaaataa
- - - - - - - - - - - - - - - - - - - catatgt