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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTACGAGTACAAGTACATTGTTGATGGGGAATGGACATGCAACAGCGATGAGCTTATAACCTCTCCCAACAAAGATGGCCATGTCAACAATTTTATTCAAgtaagtctgaaatttcaactaaatagctcaaaagaaattttgtgattggtaactcactcctttgaatcctaggaatttgctggaagcttaaagctagaaa...

Basic information

species Glycine max
transcript GLYMA10G34370.2
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G34370.2 (Glycine max), 5'ss of exon 12
lower sequence: Vv00s0250g00020.t01 (Vitis vinifera), 5'ss of exon 13
CTACGAGTACAAGTACATTGTTGATGGGGAATGGACATGCAACAGCGATGAGCTTATAACCTCTCCCAACAAAGATGGCCATGTCAACAATTTTATTCAAgtaagtctgaaatttcaactaaatagctcaaaagaaattttgtgattggtaactcactcctttgaatcctaggaatttgctggaagcttaaagctagaaa
||||||||| ||||||||||||||||| |||||||| || |||    |||||| | | |   | |||||||||||||||||||||||||||| | |||| ||||           || | || || |||| |  ||| ||  | | |||  ||||     | || | |||    |||  ||     |||   ||      
CTACGAGTATAAGTACATTGTTGATGGCGAATGGACGTGTAACGAACATGAGCATGTTAGAGCCCCCAACAAAGATGGCCATGTCAACAATTATGTTCATgtaa-----------catccaattatctcacataaaagttcatcaatggctactc-----tctgcaacctttttattcacttctctctttctgcag----
















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|207732562|gb|GD708085.1|GD708085
EST:     AGCTTATAACCTCTCCCAACAAAGATGGCCATGTCAACAATTTTATTCAA                         GTCCTTGATGATACAAGCAGTGTTCGTGCCTCTCTTCGGAAGAGATTGACG
genomic: AGCTTATAACCTCTCCCAACAAAGATGGCCATGTCAACAATTTTATTCAAgtaagtctga ... ctccgaacagGTCCTTGATGATACAAGCAGTGTTCGTGCCTCTCTTCGGAAGAGATTGACG
EST: gi|21602622|gb|BQ612953.1|BQ612953
EST:     CAACAATTTTATTCAA                         GTCCTTGATGATACAAGCAGTGTTCGTGCCTCTCTTCGGAAGAGATTGACG
genomic: CAACAATTTTATTCAAgtaagtctga ... ctccgaacagGTCCTTGATGATACAAGCAGTGTTCGTGCCTCTCTTCGGAAGAGATTGACG
EST: gi|192333297|gb|FK024274.1|FK024274
EST:     AGCTTATAACCTCTCCCAACAAAGATGGCCATGTCAACAATTTTATTCAA                         GTCCTTGATGATACAAGCAGTGTTCGTGCCTTTCTTCGGAAGAGATTGACG
genomic: AGCTTATAACCTCTCCCAACAAAGATGGCCATGTCAACAATTTTATTCAAgtaagtctga ... ctccgaacagGTCCTTGATGATACAAGCAGTGTTCGTGCCTCTCTTCGGAAGAGATTGACG
EST: gi|209709967|gb|BW681010.1|BW681010
EST:     AGCTTATAACCTCTCCCAACAAAGATGGCCATGTCAACAATTTTATTCAA                         GTCCTTGATGATACAAGCAGTGTTCGTGCCTCTCTTCGGAAGAGATTGACG
genomic: AGCTTATAACCTCTCCCAACAAAGATGGCCATGTCAACAATTTTATTCAAgtaagtctga ... ctccgaacagGTCCTTGATGATACAAGCAGTGTTCGTGCCTCTCTTCGGAAGAGATTGACG
EST: gi|214005577|gb|DB984585.1|DB984585
EST:     AGCTTATAACCTCTCCCAACAAAGATGGCCATGTCAACAATTTTATTCAA                         GTCCTTGATGATACAAGCAGTGTTCGTGCCTCTCTTCGGAAGAGATTGACG
genomic: AGCTTATAACCTCTCCCAACAAAGATGGCCATGTCAACAATTTTATTCAAgtaagtctga ... ctccgaacagGTCCTTGATGATACAAGCAGTGTTCGTGCCTCTCTTCGGAAGAGATTGACG
EST: gi|31311023|gb|CD396226.1|CD396226
EST:     AGCTTATAACCTCTCCCAACAAAGATGGCCATGTCAACAATTTTATTCAA                         GTCCTTGATGATACAAGCAGTGTTCGTGCCTCTCTTCGGAAGAGATTGACG
genomic: AGCTTATAACCTCTCCCAACAAAGATGGCCATGTCAACAATTTTATTCAAgtaagtctga ... ctccgaacagGTCCTTGATGATACAAGCAGTGTTCGTGCCTCTCTTCGGAAGAGATTGACG
EST: gi|151406054|gb|EV275869.1|EV275869
EST:     AGCTTATAACCTCTCCCAACAAAGATGGCCATGTCAACAATTTTATTCAA                         GTCCTTGATGATACAAGCAGTGTTCGTGCCTCTCTTCGGAAGAGATTGACG
genomic: AGCTTATAACCTCTCCCAACAAAGATGGCCATGTCAACAATTTTATTCAAgtaagtctga ... ctccgaacagGTCCTTGATGATACAAGCAGTGTTCGTGCCTCTCTTCGGAAGAGATTGACG
EST: gi|58018836|gb|CX705578.1|CX705578
EST:     AGCTTATAACCTCTCCCAACAAAGATGGCCATGTCAACAATTTTATTCAA                         GTCCTTGATGATACAAGCAGTGTTCGTGCCTCTCTTCGGAAGAGATTGACG
genomic: AGCTTATAACCTCTCCCAACAAAGATGGCCATGTCAACAATTTTATTCAAgtaagtctga ... ctccgaacagGTCCTTGATGATACAAGCAGTGTTCGTGCCTCTCTTCGGAAGAGATTGACG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTACGAGTACAAGTACATTGTTGATGGGGAATGGACATGCAACAGCGATGAGCTTATAACCTCTCCCAACAAAGATGGCCATGTCAACAATTTTATTCAAgtaagtctgaaatttcaactaaatagctcaaaagaaattttgtgattggtaactcactcctttgaatcctaggaatttgctggaagcttaaagctagaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG