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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggagatttttgtctattggaatataacattgacacaattttatatcttaattcatagttatttacctgtcatttcacatttatcattccttttgcattcaatacttgattttggaaaattcccatagGTATGAAGGGCCACGCACTGCTGATTCACTTGCTGAGTTTGTAAATACGGAAGGAG

Basic information

species Glycine max
transcript GLYMA02G01750.1
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|193602208|gb|FK558877.1|FK558877
EST:     GGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA                         GTATGAAGGGCCACGCACTGCTGATTCACTTGCTGAGTTTGTAAATACGGA
genomic: GGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAAgtgaggagat ... attcccatagGTATGAAGGGCCACGCACTGCTGATTCACTTGCTGAGTTTGTAAATACGGA
EST: gi|193350926|gb|FK314206.1|FK314206
EST:     GGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA                         GTATGAAGGGCCACGCACTGCT
genomic: GGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAAgtgaggagat ... attcccatagGTATGAAGGGCCACGCACTGCT
EST: gi|208324590|gb|GE120963.1|GE120963
EST:     GGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA                         GTATGAAGGGCCACGCACTGCTGATTCACTTGCTGAGTTTGTAAATACGGA
genomic: GGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAAgtgaggagat ... attcccatagGTATGAAGGGCCACGCACTGCTGATTCACTTGCTGAGTTTGTAAATACGGA
EST: gi|192333634|gb|FK026879.1|FK026879
EST:     GGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA                         GTATGAAGGGCCACGCACTGCTGATTCACTTGCTGAGTTTGTAAATACGGA
genomic: GGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAAgtgaggagat ... attcccatagGTATGAAGGGCCACGCACTGCTGATTCACTTGCTGAGTTTGTAAATACGGA
EST: gi|193481517|gb|FK446440.1|FK446440
EST:     GGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAAGCCAAAAA                         GTATGAAGGGCCACGCACTGC
genomic: GGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAAgtgaggagat ... attcccatagGTATGAAGGGCCACGCACTGC
EST: gi|208127487|gb|GD923931.1|GD923931
EST:     GGGTACCCAACAATTCAGTGGTT-CCAAAAGGATCTCTTGAACCCAAAAA                         GTATGAAGGGCCACGCACTGCTGATTCACTTGCTGAGTTTGTAAATACGGA
genomic: GGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAAgtgaggagat ... attcccatagGTATGAAGGGCCACGCACTGCTGATTCACTTGCTGAGTTTGTAAATACGGA
EST: gi|163921267|gb|EH038909.1|EH038909
EST:     GGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA                         GTATGAAGGGCCACGCACTGCTGATTCACTTGCTGAGTTTGTAAATAC---
genomic: GGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAAgtgaggagat ... attcccatagGTATGAAGGGCCACGCACTGCTGATTCACTTGCTGAGTTTGTAAATACGGA
EST: gi|207758702|gb|GD728748.1|GD728748
EST:     GGGTACCCAACAATTCAGTGGTTTCCAAAAGGGTCTCTTGAACCCAAAAA                         GTATGAAGGGCCACGCACTGCTGATTCACTTGCTAGAAGTTTAAGTAAATA
genomic: GGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAAgtgaggagat ... attcccatagGTATGAAGGGCCACGCACTGCTGATTCACTTGCT-GA-GTTT--GTAAATA
EST: gi|207759728|gb|GD734843.1|GD734843
EST:     GGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA                         GTATGAAGGGCCACGCACTGCTGATTCACTTGCTGAGTTTGTAAATACGGA
genomic: GGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAAgtgaggagat ... attcccatagGTATGAAGGGCCACGCACTGCTGATTCACTTGCTGAGTTTGTAAATACGGA
EST: gi|193465544|gb|FK432477.1|FK432477
EST:     GGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAA-                         GTATGAAGGGCCACGCACTGCTGATTCACTTGCTGAGTTTGTAAATACGGA
genomic: GGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAAgtgaggagat ... attcccatagGTATGAAGGGCCACGCACTGCTGATTCACTTGCTGAGTTTGTAAATACGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcacatttatcattccttttgcattcaatacttgattttggaaaattcccatagGTATGAAGGGCCACGCACTGCTGATTCACTTGCTGAGTTTGTAAATACGGAAGGAG
                              acttgat  putative branch site (score: 5)
                                              ttcccat  putative PPT
     atttatcatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaggagatttttgtctattggaatataacattgacacaattttatatcttaattcatagttatttacctgtcatttcacatttatcattccttttgcattcaatacttgattttggaaaattcccatagGTATGAAGGGCCACGCACTGCTGATTCACTTGCTGAGTTTGTAAATACGGAAGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG