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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATCACTAGCTCTTTCATTCGGTCAGAGTGGCCGGCAGTTGACATCCCCCTTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtctttagaagagtaacaaggctgattttattatctattcgctaatagtatttaatgaaactttgacaaggatcctactcctcggaaaccaaattggacatgtgaagcagtttcaagttctaaatctattcctttattccaatgaagctcagctgcattgattgattcctctgtag

Basic information

species Glycine max
transcript GLYMA17G11790.4
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G11790.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv11s0118g00240.t01 (Vitis vinifera), 5'ss of exon 2
GATCACTAGCTCTTTCATTCGGTCAGAGTGGCCGGCAGTTGACATCCCCCTTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtctttagaagagtaacaaggctgattttattatctattcgctaatagtatttaatgaaactttgacaaggatcctactcctcggaaaccaaattggacatgtgaagcagtttcaagttctaaatctattcctttattccaatgaagctcagctgcattgattgattcctctgtag
|||||| ||  ||||  ||||||| || |  ||  | || ||||| ||||||||  || ||| |||||| |||||||| |||||||||||||| || ||||||||  |  |      | | |          || ||     ||  ||| |  |    |||  |     | |     | | ||| |    |  ||   |  |      |                                                                       
GATCACAAGTGCTTTTGTTCGGTCTGAATTTCCATCTGTGGACATTCCCCTTGACAATAAAGTATTTGCTGTTCCAAAAGGTTATAATGCACCACAGCAAgtaagcatccaattatttgaaag---------taataaaagctccataacacaaacatatgtgaaaggcatacattcctttctctttttgatgcattctcaatggccta-----------------------------------------------------------------------
















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|213602625|gb|DB956589.1|DB956589
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|209712757|gb|BW681611.1|BW681611
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|213618106|gb|DB965263.1|DB965263
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|209701994|gb|BW670531.1|BW670531
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|151407026|gb|EV276841.1|EV276841
EST:     ATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: ATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|213604561|gb|DB966648.1|DB966648
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|209706576|gb|BW667829.1|BW667829
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|208152457|gb|GD945208.1|GD945208
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|23726031|gb|BU760993.1|BU760993
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|192311754|gb|FK003587.1|FK003587
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|254344611|gb|GR855482.1|GR855482
EST:     TTGATCATGAAGCATTTGCACTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|192299966|gb|FG991812.1|FG991812
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|6483220|gb|AW202396.1|AW202396
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|209705502|gb|BW673523.1|BW673523
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|120530447|gb|EH258580.1|EH258580
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|254343421|gb|GR857125.1|GR857125
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|213596260|gb|DB960217.1|DB960217
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|209728180|gb|BW651615.1|BW651615
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|192311725|gb|FK003586.1|FK003586
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|209714892|gb|BW682057.1|BW682057
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|19453471|gb|BM954881.1|BM954881
EST:     TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
EST: gi|8827970|gb|BE211700.1|BE211700
EST:     TTGATCAT-AA-CATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAA                         GTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG
genomic: TTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtcttt ... tcctctgtagGTGCACATCACGCAAGGTGACTATGATGGAAAAGCAGTAATCATCTCATGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATCACTAGCTCTTTCATTCGGTCAGAGTGGCCGGCAGTTGACATCCCCCTTGATCATGAAGCATTTGCAGTTCCAAAGGGTTATAATGCACCTCAACAAgtaagtctttagaagagtaacaaggctgattttattatctattcgctaatagtatttaatgaaactttgacaaggatcctactcctcggaaaccaaattggacatgtgaagcagtttcaagttctaaatctattcctttattccaatgaagctcagctgcattgattgattcctctgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC