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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttttcagtctctgatattcttaattattgtttcaagaattcttttatagatgatcaccaaaatcgatttgtattaattatttattttagtattatatctttgagagaagtggtttcttcttttccctaatgaactaaaaaagattttgtgtggatcttattgtttatggaaacttatatgttggttgttggcagCTTCTATGAACAAAGGGAGGTCTGTACGTGGGGTTTCAGAAACAGCTGAAAAGTTGGGCAATTTGTCTGTTTCCAGTCGAAGACAATCAATGGGGCAACC

Basic information

species Glycine max
transcript GLYMA01G35190.2
intron # 15
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|22927291|gb|BU544430.1|BU544430
EST:     AATGAGGACTACTAAACCAAAATATCGTCAGCCAGGAAAGGACAGCCCAA                         CTTCTATGAACAAAGGGAGGTCTGTACGTGGGGTTTCAGAAACAGCTGAAA
genomic: AATGAGGACTACTAAACCAAAATATCGTCAGCCAGGAAAGGACAGCCCAAgtaagctttt ... ttgttggcagCTTCTATGAACAAAGGGAGGTCTGTACGTGGGGTTTCAGAAACAGCTGAAA
EST: gi|23730262|gb|BU763229.1|BU763229
EST:     AATGAGGACTACTAAACCAAAATATCGTCAGCCAGGAAAGGACAGCCCAA                         CTTCTATGAACAAAGGGAGGTCTGTACGTGGGGTTTCAGAAACAGCTGAAA
genomic: AATGAGGACTACTAAACCAAAATATCGTCAGCCAGGAAAGGACAGCCCAAgtaagctttt ... ttgttggcagCTTCTATGAACAAAGGGAGGTCTGTACGTGGGGTTTCAGAAACAGCTGAAA
EST: gi|19348400|gb|BM892932.1|BM892932
EST:     AATGAGGACTACTAAACCAAAATATCGTCAGCCAGGAAAGGACAGCCCAA                         CTTCTATGAACAAAGGGAGGTCTGTACGTGGGGTTTCAGAAACAGCTGAAA
genomic: AATGAGGACTACTAAACCAAAATATCGTCAGCCAGGAAAGGACAGCCCAAgtaagctttt ... ttgttggcagCTTCTATGAACAAAGGGAGGTCTGTACGTGGGGTTTCAGAAACAGCTGAAA
EST: gi|9203919|gb|BE330143.1|BE330143
EST:     AATGAGGACTACTAAACCAAAATATCGTCAGCCAGGAAAGGACAGCCCAA                         CTTCTATGAACAAAGGGAGGTCTGTACGTGGGGTTTCAGAAACAGCTGAAA
genomic: AATGAGGACTACTAAACCAAAATATCGTCAGCCAGGAAAGGACAGCCCAAgtaagctttt ... ttgttggcagCTTCTATGAACAAAGGGAGGTCTGTACGTGGGGTTTCAGAAACAGCTGAAA
EST: gi|15336881|gb|BI497537.1|BI497537
EST:     AATGAGGACTACTAAACCAAAATATCGTCAGCCAGGAAAGGACAGCCCAA                         CTTCTATGAACAAAGGGAGGTCTGTACTTTGGGTTTCAGAAACAGCTGAAA
genomic: AATGAGGACTACTAAACCAAAATATCGTCAGCCAGGAAAGGACAGCCCAAgtaagctttt ... ttgttggcagCTTCTATGAACAAAGGGAGGTCTGTACGTGGGGTTTCAGAAACAGCTGAAA
EST: gi|6454955|gb|AW185565.1|AW185565
EST:     ATGGGGACTTCCTAAACCAAA-TATTGTCAGCCAGGAAAGGACAGCCCAA                         CTTCTATGAACAAAGGGAGGTCTGTACGTGGGGTTTCAGAAACAGCTGAAA
genomic: ATGAGGACTAC-TAAACCAAAATATCGTCAGCCAGGAAAGGACAGCCCAAgtaagctttt ... ttgttggcagCTTCTATGAACAAAGGGAGGTCTGTACGTGGGGTTTCAGAAACAGCTGAAA
EST: gi|298178671|gb|HO024406.1|HO024406
EST:     AATGAGGACTACTAAACCAAAATATCGTCAGCCAGGAAAGGACAGCCCAA                         CTTCTATGAACAAAGGGAGGTCTGTACGTGG
genomic: AATGAGGACTACTAAACCAAAATATCGTCAGCCAGGAAAGGACAGCCCAAgtaagctttt ... ttgttggcagCTTCTATGAACAAAGGGAGGTCTGTACGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagattttgtgtggatcttattgtttatggaaacttatatgttggttgttggcagCTTCTATGAACAAAGGGAGGTCTGTACGTGGGGTTTCAGAAACAGCTGAAAAGTTGGGCAATTTGTCTGTTTCCAGTCGAAGACAATCAATGGGGCAACC
              atcttattgtttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcttttcagtctctgatattcttaattattgtttcaagaattcttttatagatgatcaccaaaatcgatttgtattaattatttattttagtattatatctttgagagaagtggtttcttcttttccctaatgaactaaaaaagattttgtgtggatcttattgtttatggaaacttatatgttggttgttggcagCTTCTATGAACAAAGGGAGGTCTGTACGTGGGGTTTCAGAAACAGCTGAAAAGTTGGGCAATTTGTCTGTTTCCAGTCGAAGACAATCAATGGGGCAACC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA