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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatctctttcattccctctccaagcagttatcttgtgctgtgttgagatttcttttttgatgaacagGTCCAGATCGTAATCAAGAGAAGAGGAGCGAGTTTTGTTTTTCCTTGCAGCCCAAGCCATGGCGCCTCTG

Basic information

species Glycine max
transcript GLYMA07G40330.1
intron # 1
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|151397206|gb|EV267079.1|EV267079
EST:     GCACCAATTGTGCTTCGGAAGAACGCTCGCCCGCACC                         GTCCAGATCGTAATCAAGAGAAGAGGAGCGAGTTTTGTTTTTCCTTGCAGC
genomic: GCACCAATTGTGCTTCGGAAGAACGCTCGCCCGCACCgtaagatctc ... tgatgaacagGTCCAGATCGTAATCAAGAGAAGAGGAGCGAGTTTTGTTTTTCCTTGCAGC
EST: gi|37995961|gb|CF807550.1|CF807550
EST:     TGGATCTCACACCGCACCAATTGTGCTTCGGAAGAACGCTCGCCCGCACC                         GTCCAGATCGTAATCAAGAGAAGAGGAGCGAGTTTTGTTTTTCCTTGCAGC
genomic: TGGATCTCACACCGCACCAATTGTGCTTCGGAAGAACGCTCGCCCGCACCgtaagatctc ... tgatgaacagGTCCAGATCGTAATCAAGAGAAGAGGAGCGAGTTTTGTTTTTCCTTGCAGC
EST: gi|14259347|gb|BG882247.1|BG882247
EST:     GCTTCGGAAGAACGCTCGCCCGCACC                         GTCCAGATCGTAATCAAGAGAAGAGGAGCGAGTTTTGTTTTTCCTTGCAGC
genomic: GCTTCGGAAGAACGCTCGCCCGCACCgtaagatctc ... tgatgaacagGTCCAGATCGTAATCAAGAGAAGAGGAGCGAGTTTTGTTTTTCCTTGCAGC
EST: gi|8285571|gb|BE023130.1|BE023130
EST:     GCACCAATTGTGCTTCGGAAGAACGCTCGCCCGCACC                         GTCCAGATCGTAATCAAGAGAAGAGGAGCGAGTTTTGTTTTTCCTTGCAGC
genomic: GCACCAATTGTGCTTCGGAAGAACGCTCGCCCGCACCgtaagatctc ... tgatgaacagGTCCAGATCGTAATCAAGAGAAGAGGAGCGAGTTTTGTTTTTCCTTGCAGC
EST: gi|298183837|gb|HO029050.1|HO029050
EST:     ACCAATTGTGCTTCGGAAGAACGCTCGCCCGCACC                         GTCCAGATCGTAATCAAGAGAAGAGGAGCGAGTTTTGTTTTTCCTTGCAGC
genomic: ACCAATTGTGCTTCGGAAGAACGCTCGCCCGCACCgtaagatctc ... tgatgaacagGTCCAGATCGTAATCAAGAGAAGAGGAGCGAGTTTTGTTTTTCCTTGCAGC
EST: gi|209723407|gb|BW651349.1|BW651349
EST:     TGGATCTCACACCGCACCAATTGTGCTTCGGAAGAACGCTCGCCCGCACC                         GTCCAGATCGTAATCAAGAGAAGAGGAGCGAGTTTTGTTTTTCCTTGCAGC
genomic: TGGATCTCACACCGCACCAATTGTGCTTCGGAAGAACGCTCGCCCGCACCgtaagatctc ... tgatgaacagGTCCAGATCGTAATCAAGAGAAGAGGAGCGAGTTTTGTTTTTCCTTGCAGC
EST: gi|20812959|gb|BQ297437.1|BQ297437
EST:     TGGATCTCACACCGCACCAATTGTGCTTCGGAAGAACGCTCGCCCGCACC                         GTCCAGATCGTAATCAAGAGAAGAGGAGCGAGTTTTGTTTTTCCTTGCAGC
genomic: TGGATCTCACACCGCACCAATTGTGCTTCGGAAGAACGCTCGCCCGCACCgtaagatctc ... tgatgaacagGTCCAGATCGTAATCAAGAGAAGAGGAGCGAGTTTTGTTTTTCCTTGCAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccctctccaagcagttatcttgtgctgtgttgagatttcttttttgatgaacagGTCCAGATCGTAATCAAGAGAAGAGGAGCGAGTTTTGTTTTTCCTTGCAGCCCAAGCCATGGCGCCTCTG
                                          ttttgat  putative branch site (score: 4)
                                    tttctttttt  CT-rich tract
                                   atttcttttttgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagatctctttcattccctctccaagcagttatcttgtgctgtgttgagatttcttttttgatgaacagGTCCAGATCGTAATCAAGAGAAGAGGAGCGAGTTTTGTTTTTCCTTGCAGCCCAAGCCATGGCGCCTCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG