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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATAATACATTTTGTGGTTATCCTCCTGAGATTGTTAAGAAAATGCCAAAAAAGGAACTTGCTGAGGAGgtgatgacaattcttataatataatatatagatataaatttattgtgtagtatattcaggtctatccgtctatgcatatagatgaatatgaccttgtgta...

Basic information

species Glycine max
transcript GLYMA17G13040.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G13040.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv17s0000g04160.t01 (Vitis vinifera), 5'ss of exon 11
GTATAATACATTTTGTGGTTATCCTCCTGAGATTGTTAAGAAAATGCCAAAAAAGGAACTTGCTGAGGAGgtgatgacaattcttataatata-----atatatagatataaatttattgtgtagtatattcaggtctatccgtctatgcatatagatg--aatatgaccttgtgta-----------------------------
 ||||| || || |||||||||||||||||||| || ||||||||||| || ||||| ||||||||||||||||| | | |||| |||  ||       || ||     |||| |       ||   | ||||  |       | | |  || |   ||  |  ||     ||  |                              
ATATAACACTTTCTGTGGTTATCCTCCTGAGATAGTGAAGAAAATGCCTAAGAAGGATCTTGCTGAGGAGgtgatcatagttctcatagcattcctttgtacattaccttaaaatctgaagttaaagttttcaatttacattatttctaaatttttttgctatcatagttctgatttcatttgtattattggtttttttctcccag
















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|51341177|gb|CO982494.1|CO982494
EST:     ATCCTCCTGAGATTGTTAAGAAAATGCCAAAAAAGGAACTTGCTGAGGAG                         GTTTGGAGACTCCAGGCAGCTCTTGGCGAACAAACTGAAATTACAAAGTTC
genomic: ATCCTCCTGAGATTGTTAAGAAAATGCCAAAAAAGGAACTTGCTGAGGAGgtgatgacaa ... cgaatgtcagGTTTGGAGACTCCAGGCAGCTCTTGGCGAACAAACTGAAATTACAAAGTTC
EST: gi|4296915|gb|AI442543.1|AI442543
EST:     ATCCTCCTGAGATTGTTAAGAAAATGCCAAAAAAGGAACTTGCTGAGGAG                         GTTTGGAGACTCCAGGCAGCTCTTGGCGAACAAACTGAAATTACAAAGTTC
genomic: ATCCTCCTGAGATTGTTAAGAAAATGCCAAAAAAGGAACTTGCTGAGGAGgtgatgacaa ... cgaatgtcagGTTTGGAGACTCCAGGCAGCTCTTGGCGAACAAACTGAAATTACAAAGTTC
EST: gi|19346249|gb|BM891129.1|BM891129
EST:     ATCCTCCTGAGATTGTTAAGAAAATGCCAAAAAAGGAACTTGCTGAGGAG                         GTTTGGAGACTCCAGGCAGCTCTTGGCGAACAAACTGAAATTACAAAGTTC
genomic: ATCCTCCTGAGATTGTTAAGAAAATGCCAAAAAAGGAACTTGCTGAGGAGgtgatgacaa ... cgaatgtcagGTTTGGAGACTCCAGGCAGCTCTTGGCGAACAAACTGAAATTACAAAGTTC
EST: gi|13479627|gb|BG508970.1|BG508970
EST:     ATCCTCCTGAGATTGTTAAGAAAATGCCAAAAAAGGAACTTGCTGAGGAG                         GTTTGGAGACTCCAGGCAGCTCTTGGCGAACAAACTGAAATTACAAAGTTC
genomic: ATCCTCCTGAGATTGTTAAGAAAATGCCAAAAAAGGAACTTGCTGAGGAGgtgatgacaa ... cgaatgtcagGTTTGGAGACTCCAGGCAGCTCTTGGCGAACAAACTGAAATTACAAAGTTC
EST: gi|11414150|gb|BF426161.1|BF426161
EST:     ATCCTCCTGAGATTGTTAAGAAAATGCCAAAAAAGGAACTTGCTGAGGAG                         GCTTGGAGACTCCACGCAGCTCTTGGCGAACAAACTGAAATTACAAAGATC
genomic: ATCCTCCTGAGATTGTTAAGAAAATGCCAAAAAAGGAACTTGCTGAGGAGgtgatgacaa ... cgaatgtcagGTTTGGAGACTCCAGGCAGCTCTTGGCGAACAAACTGAAATTACAAAGTTC
EST: gi|8403908|gb|BE059542.1|BE059542
EST:     ATCCTCCTGAGATTGTTAAGAAAATGCCAAAAAAGGAACTTGCTGAGGAG                         GTTTGGAGACTCCAGGCAGCTCTTGGCGAACAAACTGAAATTACAAAGTTC
genomic: ATCCTCCTGAGATTGTTAAGAAAATGCCAAAAAAGGAACTTGCTGAGGAGgtgatgacaa ... cgaatgtcagGTTTGGAGACTCCAGGCAGCTCTTGGCGAACAAACTGAAATTACAAAGTTC
EST: gi|13791494|gb|BG654085.1|BG654085
EST:     ATCCTCCTGAGATTGTTAAGAAAATGCCAAAAAAGGAACTTGCTGAGGAG                         GTTTGGAGACTCCAGGCAGCTCTTGGCGAACAAACTGAAATTACAAAGTTC
genomic: ATCCTCCTGAGATTGTTAAGAAAATGCCAAAAAAGGAACTTGCTGAGGAGgtgatgacaa ... cgaatgtcagGTTTGGAGACTCCAGGCAGCTCTTGGCGAACAAACTGAAATTACAAAGTTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTATAATACATTTTGTGGTTATCCTCCTGAGATTGTTAAGAAAATGCCAAAAAAGGAACTTGCTGAGGAGgtgatgacaattcttataatataatatatagatataaatttattgtgtagtatattcaggtctatccgtctatgcatatagatgaatatgaccttgtgta

- - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG