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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtccacgttccgcttcgcttttcccttttcgaataaataatggctcgcttttgacgcgtgattttttaatagATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTGCAACTGTGTGATCGGAACTTCGGCGTTGGAGCTGACGGAGTTATCTTTG

Basic information

species Glycine max
transcript GLYMA03G33080.1
intron # 1
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|298191755|gb|HO035837.1|HO035837
EST:     GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTG                         ATTGACAATAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
genomic: GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTGgtgagtccac ... tttttaatagATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
EST: gi|298187329|gb|HO034478.1|HO034478
EST:     GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTG                         ATTGACAATAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGTGGTG
genomic: GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTGgtgagtccac ... tttttaatagATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
EST: gi|120532038|gb|EH260171.1|EH260171
EST:     GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTG                         ATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
genomic: GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTGgtgagtccac ... tttttaatagATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
EST: gi|298195843|gb|HO044234.1|HO044234
EST:     GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTG                         ATTGACAATAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
genomic: GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTGgtgagtccac ... tttttaatagATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
EST: gi|298175668|gb|HO015187.1|HO015187
EST:     GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTG                         ATTGACAATAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
genomic: GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTGgtgagtccac ... tttttaatagATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
EST: gi|5753437|gb|AI960724.1|AI960724
EST:     GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTG                         ATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
genomic: GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTGgtgagtccac ... tttttaatagATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
EST: gi|18041357|gb|BM309651.1|BM309651
EST:     GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTG                         ATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
genomic: GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTGgtgagtccac ... tttttaatagATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
EST: gi|9986785|gb|BE660893.1|BE660893
EST:     GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTG                         ATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
genomic: GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTGgtgagtccac ... tttttaatagATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
EST: gi|298194658|gb|HO043130.1|HO043130
EST:     GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTG                         ATTGACAATAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
genomic: GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTGgtgagtccac ... tttttaatagATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
EST: gi|208194881|gb|GD989438.1|GD989438
EST:     GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTG                         ATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
genomic: GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTGgtgagtccac ... tttttaatagATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
EST: gi|298189982|gb|HO032103.1|HO032103
EST:     GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTG                         ATTGACAATAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
genomic: GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTGgtgagtccac ... tttttaatagATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
EST: gi|298175599|gb|HO015118.1|HO015118
EST:     GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTG                         ATTGACAATAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
genomic: GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTGgtgagtccac ... tttttaatagATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
EST: gi|298169469|gb|HO020829.1|HO020829
EST:     GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTG                         ATTGACAATAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
genomic: GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTGgtgagtccac ... tttttaatagATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
EST: gi|192298876|gb|FG987621.1|FG987621
EST:     GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTG                         ATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG
genomic: GCTTCCTCCATTTCGCCAAGTACCACGGCCTCGGAAACGACTTCGTTTTGgtgagtccac ... tttttaatagATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttcccttttcgaataaataatggctcgcttttgacgcgtgattttttaatagATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTGCAACTGTGTGATCGGAACTTCGGCGTTGGAGCTGACGGAGTTATCTTTG
                               ttttgac  putative branch site (score: 3)
                                            tttttt  putative PPT
        ttttcgaataaataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtccacgttccgcttcgcttttcccttttcgaataaataatggctcgcttttgacgcgtgattttttaatagATTGACAACAGAGACTCCTCCGAGCCCAAGATCAGTGCTGAGAAAGCGGTGCAACTGTGTGATCGGAACTTCGGCGTTGGAGCTGACGGAGTTATCTTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA