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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGAGTGAGACACAGTCTGTAGTTTCAATGCTTACATTTATGCACTGGCTTGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgttttaatactctcgtgttagttattggcatgtcaatcaatgttttattctttaggtatgtatgcatgtatgcatagattgattttattaagcatt...

Basic information

species Glycine max
transcript GLYMA19G36680.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G36680.1 (Glycine max), 5'ss of exon 3
lower sequence: AT2G37020.1 (Arabidopsis thaliana), 5'ss of exon 3
AAGAGTGAGACACAGTCTGTAGTTTCAATGCTTACATTTATGCACTGGCTTGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgttttaatactctcgtgttagttattggcatgt---caatcaatgttttattctttaggtatgtatgcatgtatgcatagattga-ttttattaagcatt
|  ||||| |||||| | || || ||   |||| | |||||||||||||| ||||| ||||  ||||||| ||| |  || ||||| ||||||||||||||||||| |    | ||||   ||| |  ||  | |     |||  | ||   ||    | | |      ||  || |   ||| ||  |   |||||  |    
AGAAGTGAAACACAGGCAGTGGTCTCCCAGCTTGCTTTTATGCACTGGCTAGAAACTGGAACTCTTCTCGTGCATACCGAAGCTGAAGAAAAACTTGGGTgtatgtctctgga-tctcaatttactattttccttacttccaaatactgaaatacatatcatggcctagtggttgcac-tataaataaaaccttattttgtt--
















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|151394863|gb|EV264734.1|EV264734
EST:     TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGT                         TGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
genomic: TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgtttta ... tctattgcagTGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
EST: gi|298177419|gb|HO023552.1|HO023552
EST:     TGAAACATGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGT                         TGAATAGTTCAGAATTTGGC
genomic: TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgtttta ... tctattgcagTGAATAGTTCAGAATTTGGC
EST: gi|209727236|gb|BW655247.1|BW655247
EST:     TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGT                         TGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
genomic: TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgtttta ... tctattgcagTGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
EST: gi|193655938|gb|FK606624.1|FK606624
EST:     TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGT                         TGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAGTAG
genomic: TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgtttta ... tctattgcagTGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
EST: gi|151397327|gb|EV267200.1|EV267200
EST:     TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGT                         TGAATAGTTCAGGATTTGGCCTAGACGTTGAAGATTACTTAATAG
genomic: TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgtttta ... tctattgcagTGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
EST: gi|192300429|gb|FG991471.1|FG991471
EST:     TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGT                         TGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
genomic: TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgtttta ... tctattgcagTGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
EST: gi|192332843|gb|FK026844.1|FK026844
EST:     TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGT                         TGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
genomic: TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgtttta ... tctattgcagTGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
EST: gi|31470516|gb|CD412544.1|CD412544
EST:     CCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGT                         TGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
genomic: CCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgtttta ... tctattgcagTGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
EST: gi|8283491|gb|BE021050.1|BE021050
EST:     TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGT                         TGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
genomic: TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgtttta ... tctattgcagTGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
EST: gi|192325592|gb|FK019448.1|FK019448
EST:     TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGT                         TGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
genomic: TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgtttta ... tctattgcagTGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
EST: gi|298191793|gb|HO035875.1|HO035875
EST:     TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGT                         TGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
genomic: TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgtttta ... tctattgcagTGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
EST: gi|192332844|gb|FK026845.1|FK026845
EST:     TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGT                         TGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
genomic: TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgtttta ... tctattgcagTGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
EST: gi|31306126|gb|CD391329.1|CD391329
EST:     TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGT                         TGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
genomic: TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgtttta ... tctattgcagTGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
EST: gi|151408235|gb|EV278043.1|EV278043
EST:     TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGT                         TGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
genomic: TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgtttta ... tctattgcagTGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
EST: gi|298166913|gb|HO010352.1|HO010352
EST:     TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGT                         TGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
genomic: TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgtttta ... tctattgcagTGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
EST: gi|308098557|gb|HO760298.1|HO760298
EST:     TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGT                         TGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
genomic: TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgtttta ... tctattgcagTGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
EST: gi|192305270|gb|FG993994.1|FG993994
EST:     GAGGAAAAACTTGGGT                         TGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
genomic: GAGGAAAAACTTGGGTgtatgtttta ... tctattgcagTGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG
EST: gi|298180406|gb|HO021959.1|HO021959
EST:     TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGT                         TGAATAGTTCAGAATTTGGTCTAGACGTTGAAGATTACTTAATAG
genomic: TGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgtttta ... tctattgcagTGAATAGTTCAGAATTTGGCCTAGACGTTGAAGATTACTTAATAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGAGTGAGACACAGTCTGTAGTTTCAATGCTTACATTTATGCACTGGCTTGAAACAGGAAGCCTTCTCGAGCACAAAGAGGCTGAGGAAAAACTTGGGTgtatgttttaatactctcgtgttagttattggcatgtcaatcaatgttttattctttaggtatgtatgcatgtatgcatagattgattttattaagcatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG