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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgtgctatatagtttccaaggtgctgctgcttttgtgttgtcttaacatggttatttcatttgaatggggtctctgagatctaaactgacgatgttaatctgtctggttcaagCACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACCTCATCGCGGCAGAAGCCGTGATCGCAGTTACAGCCGAGATCGCAGCTAC

Basic information

species Glycine max
transcript GLYMA19G35980.3
intron # 5
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|208283428|gb|GE087238.1|GE087238
EST:     GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAG                         CACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
genomic: GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAGgtatgttgtg ... ctggttcaagCACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
EST: gi|15286621|gb|BI470512.1|BI470512
EST:     GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAG                         -----G-CGAGGACGGAGTTATTCACGCTCACCAGTCAAGTCACGTTCACC
genomic: GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAGgtatgttgtg ... ctggttcaagCACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
EST: gi|193466263|gb|FK434232.1|FK434232
EST:     GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAG                         CACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
genomic: GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAGgtatgttgtg ... ctggttcaagCACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
EST: gi|193432066|gb|FK395642.1|FK395642
EST:     GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCTCCAAAAAATTGAG                         CACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
genomic: GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAGgtatgttgtg ... ctggttcaagCACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
EST: gi|193566278|gb|FK524081.1|FK524081
EST:     AGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGTAG                         CACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCAC
genomic: AGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTG-AGgtatgttgtg ... ctggttcaagCACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCAC
EST: gi|208025699|gb|GD822039.1|GD822039
EST:     GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAG                         CACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
genomic: GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAGgtatgttgtg ... ctggttcaagCACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
EST: gi|213599416|gb|DB970364.1|DB970364
EST:     AGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCNNNNNNNTTGAG                         CACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCAC
genomic: AGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAA-TTGAGgtatgttgtg ... ctggttcaagCACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCAC
EST: gi|193383972|gb|FK351377.1|FK351377
EST:     GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAG                         CACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
genomic: GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAGgtatgttgtg ... ctggttcaagCACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
EST: gi|209715287|gb|BW654174.1|BW654174
EST:     GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAG                         CACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
genomic: GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAGgtatgttgtg ... ctggttcaagCACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
EST: gi|208138940|gb|GD938560.1|GD938560
EST:     GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAG                         CACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
genomic: GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAGgtatgttgtg ... ctggttcaagCACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
EST: gi|193446331|gb|FK411322.1|FK411322
EST:     GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCC-AAAAATTGAG                         CACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
genomic: GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAGgtatgttgtg ... ctggttcaagCACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
EST: gi|193546062|gb|FK502281.1|FK502281
EST:     GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAG                         CACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
genomic: GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAGgtatgttgtg ... ctggttcaagCACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
EST: gi|298181985|gb|HO026160.1|HO026160
EST:     GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAG                         CACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
genomic: GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAGgtatgttgtg ... ctggttcaagCACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
EST: gi|208053003|gb|GD850998.1|GD850998
EST:     GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAG                         CACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
genomic: GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAGgtatgttgtg ... ctggttcaagCACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
EST: gi|193678163|gb|FK617055.1|FK617055
EST:     GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAG                         CACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC
genomic: GAGAGAGGACATATAGAAAGGAACTGCAAGAACAGCCCCAAAAAATTGAGgtatgttgtg ... ctggttcaagCACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgaatggggtctctgagatctaaactgacgatgttaatctgtctggttcaagCACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACCTCATCGCGGCAGAAGCCGTGATCGCAGTTACAGCCGAGATCGCAGCTAC
                                        tctgtct  CT-rich tract
                                 atgttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttgtgctatatagtttccaaggtgctgctgcttttgtgttgtcttaacatggttatttcatttgaatggggtctctgagatctaaactgacgatgttaatctgtctggttcaagCACCAGGCGAGGACGGAGTTATTCACGCTCACCAGTCAGGTCACGTTCACCTCATCGCGGCAGAAGCCGTGATCGCAGTTACAGCCGAGATCGCAGCTAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT