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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attcttgaaaggcctgccttctcttttttgtattttacattctgaactataatgtgagtattattaatttataggaactctttttttttcttctttccagTTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGGCATGCCAAATTGTTTTTGCCACACAGAAGCATGTCAGAGTTGAAAAAAC

Basic information

species Glycine max
transcript GLYMA03G32410.1
intron # 13
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|254341005|gb|GR854733.1|GR854733
EST:     GTGTAGCAAGTGCAACAGAGCGTGAGGAACTTTCTAGTATTTTTCTGGAG                         TTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGG
genomic: GTGTAGCAAGTGCAACAGAGCGTGAGGAACTTTCTAGTATTTTTCTGGAGgtaattcctt ... ttctttccagTTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGG
EST: gi|7924613|gb|AW830639.1|AW830639
EST:     GTGTAGCAAGTGCAACAGAGCGTGAGGAACTTTCTAGTATTTTTCTGGAG                         TTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGG
genomic: GTGTAGCAAGTGCAACAGAGCGTGAGGAACTTTCTAGTATTTTTCTGGAGgtaattcctt ... ttctttccagTTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGG
EST: gi|254341006|gb|GR854734.1|GR854734
EST:     GTGTAGCAAGTGCAACAGAGCGTGAGGAACTTTCTAGTATTTTTCTGGAG                         TTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGG
genomic: GTGTAGCAAGTGCAACAGAGCGTGAGGAACTTTCTAGTATTTTTCTGGAGgtaattcctt ... ttctttccagTTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGG
EST: gi|11275016|gb|BF325340.1|BF325340
EST:     GTGTAGCAAGTGCAACAGAGCGTGAGGAACTTTCTAGTATTTTTCTGGAG                         TTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGG
genomic: GTGTAGCAAGTGCAACAGAGCGTGAGGAACTTTCTAGTATTTTTCTGGAGgtaattcctt ... ttctttccagTTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGG
EST: gi|9902862|gb|BE611830.1|BE611830
EST:     GTGTAGCAAGTGCAACAGAGCGTGAGGAACTTTCTAGTATTTTTCTGGAG                         TTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGG
genomic: GTGTAGCAAGTGCAACAGAGCGTGAGGAACTTTCTAGTATTTTTCTGGAGgtaattcctt ... ttctttccagTTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGG
EST: gi|151398619|gb|EV268490.1|EV268490
EST:     GCGTAGCAAGTGCAACAGAGCGTGAGGAACTTTCTAGTATTTTTCTGGAG                         TTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGG
genomic: GTGTAGCAAGTGCAACAGAGCGTGAGGAACTTTCTAGTATTTTTCTGGAGgtaattcctt ... ttctttccagTTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGG
EST: gi|298173373|gb|HO016709.1|HO016709
EST:     GTGTAGCAAGCGCAACAGAGCGTGAGGAACTTTCTAGTATTTTTCTGGAG                         TTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAGGATAGG
genomic: GTGTAGCAAGTGCAACAGAGCGTGAGGAACTTTCTAGTATTTTTCTGGAGgtaattcctt ... ttctttccagTTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGG
EST: gi|17153380|gb|BM143313.1|BM143313
EST:     GTGTAGCAAGTGCAACAGAGCGTGAGGAACTTTCTAGTATTTTTCTGGAG                         TTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGG
genomic: GTGTAGCAAGTGCAACAGAGCGTGAGGAACTTTCTAGTATTTTTCTGGAGgtaattcctt ... ttctttccagTTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGG
EST: gi|51335228|gb|CO979094.1|CO979094
EST:     GTGTAGCAAGTGCAACAGAGCGTGAGGAACTTTCTAGTATTTTTCTGGAG                         TTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGG
genomic: GTGTAGCAAGTGCAACAGAGCGTGAGGAACTTTCTAGTATTTTTCTGGAGgtaattcctt ... ttctttccagTTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actataatgtgagtattattaatttataggaactctttttttttcttctttccagTTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGGCATGCCAAATTGTTTTTGCCACACAGAAGCATGTCAGAGTTGAAAAAAC
                tattaat  putative branch site (score: 2)
                                ctctttttttttcttc  putative PPT
             tattattaatttatag  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attcttgaaaggcctgccttctcttttttgtattttacattctgaactataatgtgagtattattaatttataggaactctttttttttcttctttccagTTTTTAAATCTCTTTGGTGATGTTCAATCTATCAAGAGGGCTGAAGATAGGCATGCCAAATTGTTTTTGCCACACAGAAGCATGTCAGAGTTGAAAAAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - ccttctc
- - - - - - - - - - - - - - - - - - -cattctg