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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ggttagatttagaaaaaaaaaatgtttttttttttcttgctgaagctctatatgtttagcagtgttttgttgcatttcttgaatgcattgtttcaccaattggtttttggagcaGGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGGGGTTTGTACTCCTGTGCTGTATGCTGTGGATCCTGCTTTGCACACGTTAACATTTGAATATGTT

Basic information

species Glycine max
transcript GLYMA18G06300.1
intron # 3
splice site 3'
intron type U2

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|208025471|gb|GD822917.1|GD822917
EST:     TACAGGCATCCAACTTTGGATTCAAAATTGACCCTCAAGCGCTTAAATGC                         GGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGGGGTTTGTACTCCTGT
genomic: TACAGGCATCCAACTTTGGATTCAAAATTGACCCTCAAGCGCTTAAATGCggttagattt ... ttttggagcaGGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGGGGTTTGTACTCCTGT
EST: gi|151412911|gb|EV282723.1|EV282723
EST:     TACAGGCATCCAACTTTGGATTCAAAATTGACCCTCAAGCGCTTAAATGC                         GGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGGGGTTTGTACTCCTGT
genomic: TACAGGCATCCAACTTTGGATTCAAAATTGACCCTCAAGCGCTTAAATGCggttagattt ... ttttggagcaGGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGGGGTTTGTACTCCTGT
EST: gi|192295996|gb|FG989404.1|FG989404
EST:     TACAGGCATCCAACTTTGGATTCAAAATTGACCCTCAAGCGCTTAAATGC                         GGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGGGGTTTGTACTCCTGT
genomic: TACAGGCATCCAACTTTGGATTCAAAATTGACCCTCAAGCGCTTAAATGCggttagattt ... ttttggagcaGGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGGGGTTTGTACTCCTGT
EST: gi|209704846|gb|BW661676.1|BW661676
EST:     TACAGGCATCCAACTTTGGATTCAAAATTGACCCTCAAGCGCTTAAATGC                         GGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGGGGTTTGTACTCCTGT
genomic: TACAGGCATCCAACTTTGGATTCAAAATTGACCCTCAAGCGCTTAAATGCggttagattt ... ttttggagcaGGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGGGGTTTGTACTCCTGT
EST: gi|14258455|gb|BG881363.1|BG881363
EST:     TACAGGCATCCAACTTTGGATTCAAAATTGACCCTCAAGCGCTTAAATGC                         GGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGGGGTTTGTACTCCTGT
genomic: TACAGGCATCCAACTTTGGATTCAAAATTGACCCTCAAGCGCTTAAATGCggttagattt ... ttttggagcaGGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGGGGTTTGTACTCCTGT
EST: gi|58023446|gb|CX710187.1|CX710187
EST:     TACAGGCATCCAACTTTGGATTCAAAATTGACCCTCAAGCGCTTAAATGC                         GGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGGGGTTTGTACTCCTGT
genomic: TACAGGCATCCAACTTTGGATTCAAAATTGACCCTCAAGCGCTTAAATGCggttagattt ... ttttggagcaGGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGGGGTTTGTACTCCTGT
EST: gi|6719317|gb|AW306964.1|AW306964
EST:     TACAGGCATCCAACTTTGGATTCAAAATTGACCCTCAAGCGCTTAAATGC                         GGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGNGGTTTGTACTCCTGT
genomic: TACAGGCATCCAACTTTGGATTCAAAATTGACCCTCAAGCGCTTAAATGCggttagattt ... ttttggagcaGGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGGGGTTTGTACTCCTGT
EST: gi|58025042|gb|CX711783.1|CX711783
EST:     TACAGGCATCC-ACTTTTGATTCAAAATTGACCCTCAAGCGCTAAAATGC                         GGAGGCAAGGTGCATGACCAAAGCAA-GCGGACTTGGGGTTTGTACTCCTG
genomic: TACAGGCATCCAACTTTGGATTCAAAATTGACCCTCAAGCGCTTAAATGCggttagattt ... ttttggagcaGGAGGCAAGGTGCATGACCAAAGCAAGGC-GACTTGGGGTTTGTACTCCTG
EST: gi|192296716|gb|FG991284.1|FG991284
EST:     TACAGGCATCCAACTTTGGATTCAAAATTGACCCTCAAGCGCTTAAATGC                         GGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGGGGTTTGTACTCCTGT
genomic: TACAGGCATCCAACTTTGGATTCAAAATTGACCCTCAAGCGCTTAAATGCggttagattt ... ttttggagcaGGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGGGGTTTGTACTCCTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagtgttttgttgcatttcttgaatgcattgtttcaccaattggtttttggagcaGGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGGGGTTTGTACTCCTGTGCTGTATGCTGTGGATCCTGCTTTGCACACGTTAACATTTGAATATGTT
                                            ttttt  CT-rich tract
 ttttgtt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggttagatttagaaaaaaaaaatgtttttttttttcttgctgaagctctatatgtttagcagtgttttgttgcatttcttgaatgcattgtttcaccaattggtttttggagcaGGAGGCAAGGTGCATGACCAAAGCAAGGCGACTTGGGGTTTGTACTCCTGTGCTGTATGCTGTGGATCCTGCTTTGCACACGTTAACATTTGAATATGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG