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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTGgtaagtttcatgctgttgacacctataacatatatggatttatctaataatcttgttttgtgattttttttattgtataatttatgtacttatggcattt...

Basic information

species Glycine max
transcript GLYMA10G36940.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G36940.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv18s0072g00630.t01 (Vitis vinifera), 5'ss of exon 2
CCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTGgtaagtttcatgctgttgacacctataacatatatggatttatctaataatcttgttt--tgtgatttttttta---ttgtataatttatgtacttatggcattt
    ||| | |||||||| |||| ||||| ||||| ||||| ||||| || ||  |||| |||||||| |||||| ||||||||||||||||| |||   || |  ||   |          ||  |   | ||   || || |      ||| |||| ||    |  | |   | |   | | ||   |   
----GGCCTCGGGATGGAACCATTCAGTGCTTCATTAAGAGGGACAAGTCCAACTTGACTTACCACCTTTTCCTTTGCCTTAGCCCTGgtaagattc--tctctcaacggtttgtttgccgctgattccttttacggattttatgggacatgacttttgttgggctgatgtggatcacaaattaatataa---
















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|192294080|gb|FG986169.1|FG986169
EST:     GAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTG                         CCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAA
genomic: GAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTGgtaagtttca ... gctcctgcagCCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAA
EST: gi|6719177|gb|AW306824.1|AW306824
EST:     GAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTG                         CCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAA
genomic: GAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTGgtaagtttca ... gctcctgcagCCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAA
EST: gi|192301224|gb|FG988989.1|FG988989
EST:     GAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCCG                         CCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAA
genomic: GAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTGgtaagtttca ... gctcctgcagCCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAA
EST: gi|254323676|gb|GR840317.1|GR840317
EST:     GAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTG                         CCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAA
genomic: GAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTGgtaagtttca ... gctcctgcagCCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAA
EST: gi|20449612|gb|BQ253736.1|BQ253736
EST:     CACCTCTTCCTTGGCCTTAGCCCTG                         CCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAA
genomic: CACCTCTTCCTTGGCCTTAGCCCTGgtaagtttca ... gctcctgcagCCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAA
EST: gi|21678447|gb|BQ630798.1|BQ630798
EST:     GAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTG                         CCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAA
genomic: GAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTGgtaagtttca ... gctcctgcagCCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAA
EST: gi|6341681|gb|AW164505.1|AW164505
EST:     GAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTG                         CCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAA
genomic: GAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTGgtaagtttca ... gctcctgcagCCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAA
EST: gi|23725761|gb|BU760845.1|BU760845
EST:     GAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTG                         CCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAA
genomic: GAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTGgtaagtttca ... gctcctgcagCCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCTGGGCATAGGGATGGACCCATCCAGTGTTTCATCAAGAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTGGCCTTAGCCCTGgtaagtttcatgctgttgacacctataacatatatggatttatctaataatcttgttttgtgattttttttattgtataatttatgtacttatggcattt

- - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA