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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATGTAGGACCATTTCAATTCAGGTTGCAGAATGAGGGCAATACGCCCCGGAACATTTTGGAAGAGATTGTGTGGAATAAGGACACAGAAGTCTCACAGgtattgtgattgatttgctttgtgctctattgttcttaatatatatgttgtttttcaaccaaatagattgaatgtattactggggactgtgtgattttcag

Basic information

species Glycine max
transcript GLYMA14G05810.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G05810.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv12s0057g01240.t01 (Vitis vinifera), 5'ss of exon 2
TTATGTAGGACCATTTCAATTCAGGTTGCAGAATGAGGGCAATACGCCCCGGAACATTTTGGAAGAGATTGTGTGGAATAAGGACACAGAAGTCTCACAGgtattgtgattgatttgctttgtgctctattgttcttaatatatatgttgtttttcaaccaaatagattgaatgtattactggggactgtgtgattttcag
|||||| || || ||| | ||  |||| ||||||||||| || || || || |||||||||||||| ||||| ||||| |||||||  ||||||||||||||  | |   |   || ||     || |  |  | |   | | | || ||| |||  ||        |  ||||     |   | | | ||   |||||||
TTATGTGGGCCCTTTTGAGTTTCGGTTACAGAATGAGGGTAACACTCCTCGTAACATTTTGGAAGAAATTGTATGGAACAAGGACAAGGAAGTCTCACAGgttctctttctctgtttctcaaaccttttgttatttgtttttttgtgatgtattttgacgtgcgccctctaatgc----ccttgaattttgc--ttttcag
















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|207821781|gb|GD794808.1|GD794808
EST:     GACACAGAAGTCTCACAG                         CTTAAAGAAAGAAAACCCCTTGGCGTGCTGAAGAAAGCTCTTGAAAATGCA
genomic: GACACAGAAGTCTCACAGgtattgtgat ... tgattttcagCTTAAAGAAAGAAAACCCCTTGGCGTGCTGAAGAAAGCTCTTGAAAATGCA
EST: gi|208137331|gb|GD937183.1|GD937183
EST:     TTGGAAGAGATTGTGTGGAATAAGGACACAGAAGTCTCACAG                         CTTAAAGAAAGAAAACCCCTTGGCGTGCTGAAGAAAGCTCTTGAAAATGCA
genomic: TTGGAAGAGATTGTGTGGAATAAGGACACAGAAGTCTCACAGgtattgtgat ... tgattttcagCTTAAAGAAAGAAAACCCCTTGGCGTGCTGAAGAAAGCTCTTGAAAATGCA
EST: gi|193345406|gb|FK312971.1|FK312971
EST:     GAACATTTTGGAAGAGATTGTAGTGGAATAAGGACACAGAAGTCTCACAG                         CTTAAAGAAAGAAAACCCCTTGGCGTGCTGAAGAAAGCTCTTGAAAATGCA
genomic: GAACATTTTGGAAGAGATTGT-GTGGAATAAGGACACAGAAGTCTCACAGgtattgtgat ... tgattttcagCTTAAAGAAAGAAAACCCCTTGGCGTGCTGAAGAAAGCTCTTGAAAATGCA
EST: gi|193437530|gb|FK403047.1|FK403047
EST:     GGAACATTTTGGAAGAGATTGTGTGGAATAAGGACACAGAAGTCTCACAG                         CTTAAAGAAAGAAAACCCCTTGGCGTGCTAGAAGAAAGCTCTT
genomic: GGAACATTTTGGAAGAGATTGTGTGGAATAAGGACACAGAAGTCTCACAGgtattgtgat ... tgattttcagCTTAAAGAAAGAAAACCCCTTGGCGTGCT-GAAGAAAGCTCTT
EST: gi|37995359|gb|CF806948.1|CF806948
EST:     GGAACATTTTGGATGAGATTGTGTGGAATAAGGACACAGAAGTCTCACAG                         CTTAAAGAAAGAAAACCCCTTGGCGTGCTGAAGAAAGCTCTTGAAAATGCA
genomic: GGAACATTTTGGAAGAGATTGTGTGGAATAAGGACACAGAAGTCTCACAGgtattgtgat ... tgattttcagCTTAAAGAAAGAAAACCCCTTGGCGTGCTGAAGAAAGCTCTTGAAAATGCA
EST: gi|193415389|gb|FK380993.1|FK380993
EST:     AACATTTTGGAAGAGATTGTGTGGAATAAGGACACAGAAGTCTCACAG                         CTTAAAGAAAGAAAACCCCTTGGCGTGCTGAAGAAAGCTCTTGAAAATGCA
genomic: AACATTTTGGAAGAGATTGTGTGGAATAAGGACACAGAAGTCTCACAGgtattgtgat ... tgattttcagCTTAAAGAAAGAAAACCCCTTGGCGTGCTGAAGAAAGCTCTTGAAAATGCA
EST: gi|208145994|gb|GD943633.1|GD943633
EST:     AACATTTTGGAAGAGATTGTGTGGAATAAGGACACAGAAGTCTCACAG                         CTTAAAGAAAGAAAACCCCTTGGCGTGCTGAAGAAAGCTCTTGAAAACGCA
genomic: AACATTTTGGAAGAGATTGTGTGGAATAAGGACACAGAAGTCTCACAGgtattgtgat ... tgattttcagCTTAAAGAAAGAAAACCCCTTGGCGTGCTGAAGAAAGCTCTTGAAAATGCA
EST: gi|193649340|gb|FK598857.1|FK598857
EST:     TTGTGTGGAATAAGGACACAGAAGTCTCACAG                         CTTAAAGAAAGAAAACCCCTTGGCGTGCTGAAGAAAGCTCTTGAAAATGCA
genomic: TTGTGTGGAATAAGGACACAGAAGTCTCACAGgtattgtgat ... tgattttcagCTTAAAGAAAGAAAACCCCTTGGCGTGCTGAAGAAAGCTCTTGAAAATGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTATGTAGGACCATTTCAATTCAGGTTGCAGAATGAGGGCAATACGCCCCGGAACATTTTGGAAGAGATTGTGTGGAATAAGGACACAGAAGTCTCACAGgtattgtgattgatttgctttgtgctctattgttcttaatatatatgttgtttttcaaccaaatagattgaatgtattactggggactgtgtgattttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT