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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGTGGAAATGGTTTCCAGAGTATTGTGATATCACTGAAAGACACCTTTTATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGGgtaaatttcttgagatatcattaattgatttaaatagtcattatgttgatagcataagtccaatgtattgacccatgattttcgtcttttgcag

Basic information

species Glycine max
transcript GLYMA10G04300.1
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G04300.2 (Glycine max), 5'ss of exon 19
lower sequence: Vv07s0005g03440.t01 (Vitis vinifera), 5'ss of exon 12
ATGGTGGAAATGGTTTCCAGAGTATTGTGATATCACTGAAAGACACCTTTTATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGGgtaaatttcttga-gatatcattaattgatttaaatagtcattatgttgatagca-----taagt------ccaatgtattgacccatgattttcgtcttttgcag-------------------------------
| || || | |||||| |||||||| |||||||||||||| || | |||||||||||| || |||||  | |||||||||||||| |||||||| || |||||| |||||| | ||||| ||  ||| | ||||   ||  | || ||| |   |     |  ||      ||| | | |  ||| |  |||  | |  |  ||||                               
AGGGAGGCAGTGGTTTTCAGAGTATCGTGATATCACTGAAGGATAGCTTTTATGACAAGGCTGAAGCTCTGGTTGGGGTTTACAGGGACTCTGATAGGGGgtaagtttcttcatgatattat--atttagttaatgcgttttcattttggtgctactttctgggttgttttccagtatgtccaccaa--attaacctgctaagcagagacaatgctaatacctatatttaattgcag
















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|214004496|gb|DB985080.1|DB985080
EST:     TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGG                         CTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
genomic: TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGGgtaaatttct ... tcttttgcagCTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
EST: gi|23734654|gb|BU765564.1|BU765564
EST:     TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGG                         CTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
genomic: TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGGgtaaatttct ... tcttttgcagCTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
EST: gi|31472073|gb|CD414101.1|CD414101
EST:     TATGACCAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGG                         CTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
genomic: TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGGgtaaatttct ... tcttttgcagCTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
EST: gi|254336329|gb|GR842508.1|GR842508
EST:     TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGG                         CTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
genomic: TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGGgtaaatttct ... tcttttgcagCTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
EST: gi|120493576|gb|EH221743.1|EH221743
EST:     TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGG                         CTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
genomic: TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGGgtaaatttct ... tcttttgcagCTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
EST: gi|31458556|gb|CD400584.1|CD400584
EST:     TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGG                         CTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
genomic: TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGGgtaaatttct ... tcttttgcagCTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
EST: gi|213601622|gb|DB980879.1|DB980879
EST:     TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGG                         CTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
genomic: TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGGgtaaatttct ... tcttttgcagCTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
EST: gi|254336328|gb|GR842507.1|GR842507
EST:     TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGG                         CTGTTCGAGAACTCTCACCTTTGATTTGACTAAATA
genomic: TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGGgtaaatttct ... tcttttgcagCTGTTCGAGAACTCTCACCTTTGATTTGACTAAATA
EST: gi|15286886|gb|BI470777.1|BI470777
EST:     TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGG                         CTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
genomic: TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGGgtaaatttct ... tcttttgcagCTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
EST: gi|209719613|gb|BW669198.1|BW669198
EST:     TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGG                         CTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
genomic: TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGGgtaaatttct ... tcttttgcagCTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
EST: gi|22524955|gb|BU083766.1|BU083766
EST:     TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGG                         CTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA
genomic: TATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGGgtaaatttct ... tcttttgcagCTGTTCGAGAACTCTCACCTTTGATTTGACTAAATACCGAGAGTTCTAAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGGTGGAAATGGTTTCCAGAGTATTGTGATATCACTGAAAGACACCTTTTATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGGgtaaatttcttgagatatcattaattgatttaaatagtcattatgttgatagcataagtccaatgtattgacccatgattttcgtcttttgcag

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