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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTAACCAAGGAAGGAGAAAGGTGAGTGGAAGATCACTAAAGGCTCAGAGAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCATgtaagtgaattgagaatggcatgaataaaattttatcttgatttagtgtgtttagcattccatataaggcatatcaatgagttttacgttggctgttgag...

Basic information

species Glycine max
transcript GLYMA15G40060.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G40060.1 (Glycine max), 5'ss of exon 2
lower sequence: AT1G53650.2 (Arabidopsis thaliana), 5'ss of exon 2
TTTTAACCAAGGAAGGAGA---AAGGTGAGTGGAAGATCACTAAAGGCTCAGAGAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCATgtaagtgaattgagaatggcatgaataaaattttatctt---gatttagtgtgtttagcattccatataaggcatatcaatgagttttacgttggctgttgag
   ||||||||| ||||||   | | |   ||||||| |    |||||||| ||||||||||| |||||||||||||| ||||| ||||| |||||||||  ||||||| | || |  |     |   || | ||| |       |||| ||| | || | ||||       |    | |   |   ||| |  | |         
---TAACCAAGGGAGGAGAGTGAGGTTACCTGGAAGAGCTTCTAAGGCTCAAAGAGAAGATAGTATTAGAAGAACAGTGTATGTCTCTGACATTGATCAGAGTgtaagttacttaa--accctctttttagattttcagaaaaaagattcagt-ttttcaacattgtcacctatttttttttttttttttcaaatag---------

upper sequence: GLYMA15G40060.1 (Glycine max), 5'ss of exon 2
lower sequence: AT3G14450.1 (Arabidopsis thaliana), 5'ss of exon 2
TTTTAACCAAGGAAGGAGAAAGGTGAGTGGAAGATCACTAAAGGCTCAGAGAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCATgtaagtgaattgagaatggcatgaataaaattttatcttgatttagtgtgtttagcattccatataaggcatatcaatgagttttacgttggctgttgag
 | || |||||| || || | | | | |||||||      |||||||| ||||| ||||| |||||||||||||| ||||||||||| ||||| |||  ||| |||   |||    | |  |   |||  ||||     || || | ||   ||  ||||  ||      || | |   | || | | ||| |  || ||
CTATAGCCAAGGGAGAAGGAGGTTAACTGGAAGAATTTCTAAGGCTCAAAGAGAGGATAGTATTAGAAGAACAGTTTATGTTTCTGACATTGACCAGAGTgttagtt--ttgtttttagtcttt-taaggttttgggaagaattcgagt---taatattcatta------atgtaacataattctgctttg-cgatttag

upper sequence: GLYMA15G40060.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv19s0176g00140.t01 (Vitis vinifera), 5'ss of exon 2
TTTTAACCAAGGAAGGAGAAAGGTGAGTGGAAGATCACTAAAGGCTCAGAGAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCATgtaagtg-aattgagaatggcatgaataaaattttatcttgatttagt---gtgtttagcattccatataaggcatatcaatga-gttttacgttggctgttgag--------------
|| ||||||||||||||| | | ||||||| ||| || | |  |||||  | |||||||| ||| |  | || || ||||||||||| ||||||||||||||||||| || ||  |      | | | |  | |||  || | || |     | ||    | ||  | |   |  |   | ||| | | ||     ||  ||                 
TTATAACCAAGGAAGGAGGAGGTTGAGTGGGAGAGCATTTAGAGCTCAACGTGAAGATAGTATTCGCCGCACTGTGTATGTTTCTGATATTGATCAGCATgtaagtgcaaatggaaggattctcattcatttattacttttactttgctgaatattagaaaatctctttcttgttttagagtgatgctgtaataatgccattttatgtcttcaaattag

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|58020690|gb|CX707432.1|CX707432
EST:     GAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCAT                         GTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
genomic: GAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCATgtaagtgaat ... cctggtgtagGTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
EST: gi|151403013|gb|EV272826.1|EV272826
EST:     GAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCAT                         GTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
genomic: GAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCATgtaagtgaat ... cctggtgtagGTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
EST: gi|27425564|gb|CA937084.1|CA937084
EST:     GAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCAT                         GTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
genomic: GAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCATgtaagtgaat ... cctggtgtagGTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
EST: gi|193704004|gb|FK647408.1|FK647408
EST:     GAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCAT                         GTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
genomic: GAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCATgtaagtgaat ... cctggtgtagGTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
EST: gi|21677855|gb|BQ630206.1|BQ630206
EST:     GAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCAT                         GTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
genomic: GAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCATgtaagtgaat ... cctggtgtagGTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
EST: gi|14989895|gb|BI315576.1|BI315576
EST:     GAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCAT                         GTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
genomic: GAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCATgtaagtgaat ... cctggtgtagGTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
EST: gi|58020886|gb|CX707628.1|CX707628
EST:     GAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCAT                         GTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
genomic: GAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCATgtaagtgaat ... cctggtgtagGTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
EST: gi|19270477|gb|BM886733.1|BM886733
EST:     GAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCAT                         GTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
genomic: GAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCATgtaagtgaat ... cctggtgtagGTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
EST: gi|58020497|gb|CX707239.1|CX707239
EST:     GAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCAT                         GTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
genomic: GAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCATgtaagtgaat ... cctggtgtagGTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
EST: gi|298191171|gb|HO038650.1|HO038650
EST:     TATGTTTCTGAGATTGATCAGCAT                         GTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
genomic: TATGTTTCTGAGATTGATCAGCATgtaagtgaat ... cctggtgtagGTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
EST: gi|8284333|gb|BE021892.1|BE021892
EST:     GAACAGTATATGTTTCTGAGATTGATCAGCAT                         GTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA
genomic: GAACAGTATATGTTTCTGAGATTGATCAGCATgtaagtgaat ... cctggtgtagGTTACTGAGGAGCGGCTTGCTGCTTTATTCAGCAGCTGTGGACAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTTAACCAAGGAAGGAGAAAGGTGAGTGGAAGATCACTAAAGGCTCAGAGAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGATTGATCAGCATgtaagtgaattgagaatggcatgaataaaattttatcttgatttagtgtgtttagcattccatataaggcatatcaatgagttttacgttggctgttgag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaataaaa