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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgttaattaacatgcctacttcattttttttcttgggttgctattttatgcaaacacctaaacttgtcttgattttgacgaattttgttctatacttcagTTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATACT

Basic information

species Glycine max
transcript GLYMA04G43390.3
intron # 4
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|207735715|gb|GD713050.1|GD713050
EST:     TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAG                         TTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
genomic: TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAGgttttaagtt ... tatacttcagTTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
EST: gi|193614874|gb|FK562856.1|FK562856
EST:     CCCAACCATGAGTCCAACATTCAAG                         TTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
genomic: CCCAACCATGAGTCCAACATTCAAGgttttaagtt ... tatacttcagTTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
EST: gi|193682413|gb|FK624617.1|FK624617
EST:     TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAG                         TTTGCGAGGCTTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCGTCAT
genomic: TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAGgttttaagtt ... tatacttcagTTTGCGAGGC-TTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCAT
EST: gi|208060289|gb|GD859963.1|GD859963
EST:     TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAG                         TTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
genomic: TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAGgttttaagtt ... tatacttcagTTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
EST: gi|14012147|gb|BG727069.1|BG727069
EST:     TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAG                         TTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
genomic: TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAGgttttaagtt ... tatacttcagTTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
EST: gi|18041373|gb|BM309667.1|BM309667
EST:     TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAG                         TTTGCGAGGCTTATTCTGAAAC
genomic: TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAGgttttaagtt ... tatacttcagTTTGCGAGGCTTATTCTGAAAC
EST: gi|193681609|gb|FK623331.1|FK623331
EST:     TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAG                         TTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
genomic: TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAGgttttaagtt ... tatacttcagTTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
EST: gi|193393375|gb|FK359367.1|FK359367
EST:     TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAG                         TTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
genomic: TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAGgttttaagtt ... tatacttcagTTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
EST: gi|193439674|gb|FK405877.1|FK405877
EST:     TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAG                         TTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
genomic: TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAGgttttaagtt ... tatacttcagTTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
EST: gi|31561978|gb|CD487816.1|CD487816
EST:     TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAG                         TTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
genomic: TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAGgttttaagtt ... tatacttcagTTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
EST: gi|254326214|gb|GR840806.1|GR840806
EST:     TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAG                         TTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
genomic: TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAGgttttaagtt ... tatacttcagTTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
EST: gi|193398710|gb|FK362490.1|FK362490
EST:     TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAG                         TTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
genomic: TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAGgttttaagtt ... tatacttcagTTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
EST: gi|298187350|gb|HO034499.1|HO034499
EST:     TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAG                         TTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
genomic: TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAGgttttaagtt ... tatacttcagTTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
EST: gi|120533661|gb|EH261794.1|EH261794
EST:     TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAG                         TTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA
genomic: TGATCCCTTACTTGAATGCTTCAAGCCCAACCATGAGTCCAACATTCAAGgttttaagtt ... tatacttcagTTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatgcaaacacctaaacttgtcttgattttgacgaattttgttctatacttcagTTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATACT
                           ttttgac  putative branch site (score: 3)
                                     ttttgttct  putative PPT
                                   aattttgttctata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgttaattaacatgcctacttcattttttttcttgggttgctattttatgcaaacacctaaacttgtcttgattttgacgaattttgttctatacttcagTTTGCGAGGCTTATTCTGAAACAGTGAAGAGGGCTATCGTTGATCATCATACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG