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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACTGGCTTCCAATCAAAAGGGTCCTACTTGTTTGGTCACTTCAGCATGTACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaacaattctctgttttgttttgtgttggtttcaagttttccaccaatttgttttctcagttttgttatgtgactctttctttggctgtgattggcactgcag

Basic information

species Glycine max
transcript GLYMA16G26630.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G26630.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S4_32V6.1 (Physcomitrella patens), 5'ss of exon 2
TACTGGCTTCCAATCAAAAGGGTCCTACTTGTTTGGTCACTTCAGCATGTACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaacaattctctgttttgttttgtgttggtttcaagttttccaccaatttgttttctcagttttgttatgtgactctttctttggctgtgattggcactgcag
  |||| ||   ||||||       || ||||||||  || |||  |||   || ||  | ||  | ||||||||||||||||||||||||||||  ||||||||  |   |   ||       ||  || ||||  |||   | | |||||||            ||    || | ||    ||    ||  | ||||||    |||||
ATCTGGGTTTGGATCAAATTACCAGTATTTGTTTGGGAACATCACGATGATGATCAAGCTTGTGCCGGGTGATTCAGCTGGCACAGTCACTGCTTATTATgtaagtcagttatgacttgaagaagtcctgggttgagttc---tctgccaccaa------------gtgagattgtttggagtttctgatgaatttgattgaatgtgcag
















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|298181242|gb|HO022681.1|HO022681
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|26057164|gb|CA800078.1|CA800078
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|26057309|gb|CA800223.1|CA800223
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|26047926|gb|CA784566.1|CA784566
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|209697680|gb|BW655581.1|BW655581
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|213608142|gb|DB963044.1|DB963044
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|10710011|gb|BF009735.1|BF009735
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|21257114|gb|BQ454002.1|BQ454002
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|8826632|gb|BE210362.1|BE210362
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|21677422|gb|BQ629773.1|BQ629773
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|26047909|gb|CA784550.1|CA784550
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|192325208|gb|FK019109.1|FK019109
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|192300515|gb|FG991497.1|FG991497
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATTCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|37995899|gb|CF807488.1|CF807488
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|151410958|gb|EV280773.1|EV280773
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|15815678|gb|BI787953.1|BI787953
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|12688333|gb|BG154669.1|BG154669
EST:     ATAAAATTGGTTGCTGGTGATTCAGCCT-GCACAGTCACCTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ATAAAATTGGTTGCTGGTGATTCAG-CTGGCACAGTCA-CTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|14125481|gb|BG789919.1|BG789919
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|298197960|gb|HO039499.1|HO039499
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|10237640|gb|BE806528.1|BE806528
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|9204019|gb|BE330243.1|BE330243
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|7925629|gb|AW831655.1|AW831655
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|298174405|gb|HO014550.1|HO014550
EST:     ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... ggcactgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TACTGGCTTCCAATCAAAAGGGTCCTACTTGTTTGGTCACTTCAGCATGTACATAAAATTGGTTGCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaacaattctctgttttgttttgtgttggtttcaagttttccaccaatttgttttctcagttttgttatgtgactctttctttggctgtgattggcactgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG