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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catatgttacataaaatcagcatcttttattttgctttatggatgtgcggaatagtgcaagtgtgagtgaaaattgtaacgaattcgggtttgtacgtagGATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGGCATTCCATATGTCATGACACTGCTCAATTGTCTCCTTTCAGCTTG

Basic information

species Glycine max
transcript GLYMA06G12740.4
intron # 2
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|298197426|gb|HO044905.1|HO044905
EST:     GGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGT                         GATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGG
genomic: GGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGTgtatgcatta ... ttgtacgtagGATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGG
EST: gi|209700762|gb|BW683045.1|BW683045
EST:     GGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGT                         GATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGG
genomic: GGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGTgtatgcatta ... ttgtacgtagGATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGG
EST: gi|298168790|gb|HO009720.1|HO009720
EST:     GGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGT                         GATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGG
genomic: GGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGTgtatgcatta ... ttgtacgtagGATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGG
EST: gi|298171821|gb|HO021413.1|HO021413
EST:     GGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGT                         GATCACATTCAGGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGG
genomic: GGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGTgtatgcatta ... ttgtacgtagGATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGG
EST: gi|192326194|gb|FK016986.1|FK016986
EST:     GGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGT                         GATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGG
genomic: GGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGTgtatgcatta ... ttgtacgtagGATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGG
EST: gi|298191089|gb|HO038568.1|HO038568
EST:     GGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGT                         GATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGG
genomic: GGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGTgtatgcatta ... ttgtacgtagGATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGG
EST: gi|298190375|gb|HO032496.1|HO032496
EST:     GGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGT                         GATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGG
genomic: GGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGTgtatgcatta ... ttgtacgtagGATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGG
EST: gi|298175722|gb|HO018319.1|HO018319
EST:     GGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGT                         GATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGG
genomic: GGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGTgtatgcatta ... ttgtacgtagGATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGG
EST: gi|151413261|gb|EV283069.1|EV283069
EST:     GGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGT                         GATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGG
genomic: GGAATGCTTCCGCTCTGTTCCTCTTCTTGGCTCCAGTgtatgcatta ... ttgtacgtagGATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcggaatagtgcaagtgtgagtgaaaattgtaacgaattcgggtttgtacgtagGATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGGCATTCCATATGTCATGACACTGCTCAATTGTCTCCTTTCAGCTTG
                            ttgtaac  putative branch site (score: 2)
                        aaaattgtaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catatgttacataaaatcagcatcttttattttgctttatggatgtgcggaatagtgcaagtgtgagtgaaaattgtaacgaattcgggtttgtacgtagGATCACATTCAAGAGGATTATAAAGAACAGATCCACAGAGAAGTTCTCGGGCATTCCATATGTCATGACACTGCTCAATTGTCTCCTTTCAGCTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
catatgt
- - - - - - - - - - - - - - - - tgcttta
- - - - - - - - - - - - - - - - - - - - ggatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcaagt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgagtga