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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGTTGCTGTGAAAATTCTGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctgaagttcttatcttgttttgtgcagaaaaaacaccaattgcactttaagttttgcttgctattgatttgagctgtatttttacctcttttgctag

Basic information

species Glycine max
transcript GLYMA19G37570.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G37570.1 (Glycine max), 5'ss of exon 9
lower sequence: AT5G03730.2 (Arabidopsis thaliana), 5'ss of exon 8
GAGGTTGCTGTGAAAATTCTGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctgaagttcttatcttgttttgtgcagaaaaaacaccaattgcactttaagttttgcttgctattgatttgagctgtatttttacctcttttgctag
|| ||||||||||||||||| ||||| ||||||||| | | ||| ||  | || || ||| | || |||||   |    ||  | || ||||| |||  | |   ||    |   ||| | || | || |    || | ||||||   |||||                    
GATGTTGCTGTGAAAATTCTCATGGAGCAAGACTTCCATGCTGAGCGTGTTAATGAGTTCTTAAGAGAGgtgcacaaataaaattttctcttgattttggtaatgaa----cttgttgta-ttaatgtctccaatgatcttgattc--gctgtcag-----------------
















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|193654480|gb|FK600590.1|FK600590
EST:     GATGGAACAAGACTTCAAAGGTGAACGCTTCAAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: GATGGAACAAGACTTCAAAGGTGAACGCTTC-AAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|298178752|gb|HO024487.1|HO024487
EST:     GGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: GGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|208211092|gb|GE012153.1|GE012153
EST:     CAAAGGTGAACGCCTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: CAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|193385242|gb|FK352704.1|FK352704
EST:     TGATGGAACAAGACTTC-AAGGTGAACGCTTCAAGGAATTCTTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|208307044|gb|GE101556.1|GE101556
EST:     AAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: AAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|208176074|gb|GD974305.1|GD974305
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|208258098|gb|GE054559.1|GE054559
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGG
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATG-AAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGG
EST: gi|193369249|gb|FK337113.1|FK337113
EST:     AATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: AATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|193314122|gb|FK282527.1|FK282527
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|208030492|gb|GD828404.1|GD828404
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|208273291|gb|GE070577.1|GE070577
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|193398396|gb|FK362064.1|FK362064
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTTCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTCTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|193402418|gb|FK369778.1|FK369778
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|208324413|gb|GE125714.1|GE125714
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|207701641|gb|GD681864.1|GD681864
EST:     AACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: AACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGGTTGCTGTGAAAATTCTGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctgaagttcttatcttgttttgtgcagaaaaaacaccaattgcactttaagttttgcttgctattgatttgagctgtatttttacctcttttgctag

- - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA