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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atatcttatcataaatgagataagcttatcaagtgagagatgttgctattacattgccaatttactgtgattcatgtcttttaatactggaatgatttcaGATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGTGCCAGGTGCAGCTGCTTAAGTTTTGAGGGGTTGTGATGTTCGGAGCTCT

Basic information

species Glycine max
transcript GLYMA18G03360.1
intron # 9
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|208213345|gb|GE014098.1|GE014098
EST:     TAATTGCACTCCACAACTTGATTAACAACAA                         GATGCTTAACAAGGAAAATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
genomic: TAATTGCACTCCACAACTTGATTAACAACAAggtgagatac ... aatgatttcaGATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
EST: gi|209702245|gb|BW664636.1|BW664636
EST:     TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAA                         GATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
genomic: TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAAggtgagatac ... aatgatttcaGATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
EST: gi|207776492|gb|GD747405.1|GD747405
EST:     TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAA                         GATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
genomic: TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAAggtgagatac ... aatgatttcaGATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
EST: gi|193412978|gb|FK381695.1|FK381695
EST:     TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAA                         GATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAAGTTACGG
genomic: TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAAggtgagatac ... aatgatttcaGATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATC-AGTTACGG
EST: gi|209700576|gb|BW670404.1|BW670404
EST:     TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAA                         GATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
genomic: TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAAggtgagatac ... aatgatttcaGATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
EST: gi|151409423|gb|EV279231.1|EV279231
EST:     TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAA                         GATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
genomic: TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAAggtgagatac ... aatgatttcaGATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
EST: gi|193541743|gb|FK498431.1|FK498431
EST:     TCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAA                         GATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
genomic: TCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAAggtgagatac ... aatgatttcaGATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
EST: gi|208198358|gb|GD995463.1|GD995463
EST:     TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAA                         GATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCNGTTACGGT
genomic: TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAAggtgagatac ... aatgatttcaGATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
EST: gi|208173433|gb|GD971188.1|GD971188
EST:     TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAA                         GATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
genomic: TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAAggtgagatac ... aatgatttcaGATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
EST: gi|213596106|gb|DB975869.1|DB975869
EST:     CATCTCTCA-AACGAAGTGTAATTGCACTCCACAACTTGATTAACAACAA                         GATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
genomic: CATCTCTCATTA-GAAGTGTAATTGCACTCCACAACTTGATTAACAACAAggtgagatac ... aatgatttcaGATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
EST: gi|193401209|gb|FK370152.1|FK370152
EST:     TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAA                         GATGCTTAACAAGGAACATGANCGGG
genomic: TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAAggtgagatac ... aatgatttcaGATGCTTAACAAGGAACATGAGCGGG
EST: gi|214006383|gb|DB985759.1|DB985759
EST:     TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAA                         GATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
genomic: TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAAggtgagatac ... aatgatttcaGATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
EST: gi|193363559|gb|FK330863.1|FK330863
EST:     CAACTTGATTAACAACAA                         GATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
genomic: CAACTTGATTAACAACAAggtgagatac ... aatgatttcaGATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
EST: gi|193406522|gb|FK371827.1|FK371827
EST:     TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAA                         GATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT
genomic: TCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAAggtgagatac ... aatgatttcaGATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctattacattgccaatttactgtgattcatgtcttttaatactggaatgatttcaGATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGTGCCAGGTGCAGCTGCTTAAGTTTTGAGGGGTTGTGATGTTCGGAGCTCT
                                 ttttaat  putative branch site (score: 3)
                               tcttttaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atatcttatcataaatgagataagcttatcaagtgagagatgttgctattacattgccaatttactgtgattcatgtcttttaatactggaatgatttcaGATGCTTAACAAGGAACATGAGCGGGCAGAAGATTCGAAATCAGTTACGGTGCCAGGTGCAGCTGCTTAAGTTTTGAGGGGTTGTGATGTTCGGAGCTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - -caagtga
- - - - - - - - - - - - - - - - - - - - tgttgct
- - - - - - - - - - - - - - - - - - - - - - - - - -cattgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tactgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atactgg