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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttattcctttgagcactatgatttaatcaaaagtcaaaacaataacaaagtaatgattttctgtatctcttttgctgactgctcttcccttgtttgcagGTTAATCATTTAGTCACTGTATTGTGAGGAAGCTTGTTTGTCATTGTTTCTAATTTGAAGTACTGGGTTTGCTACATTAAGTGGGGTTTTGAGTGGTGAA

Basic information

species Glycine max
transcript GLYMA20G35120.4
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|209703433|gb|BW683333.1|BW683333
EST:     ACAGGTCAATTTGCTGTCCACACTGCTGCAACTCTTGCAAACTCTTTTAG                         GTTAATCATTTAGTCACTGTATTGTGAGGAAGCTTGTTTGTCATTGTTTCT
genomic: ACAGGTCAATTTGCTGTCCACACTGCTGCAACTCTTGCAAACTCTTTTAGgttggaacac ... ttgtttgcagGTTAATCATTTAGTCACTGTATTGTGAGGAAGCTTGTTTGTCATTGTTTCT
EST: gi|208189086|gb|GD985590.1|GD985590
EST:     CCACACTGCTGCAACTCTTGCAAACTCTTTTAG                         GTTAATCATTTAGTCACTGTATTGTGAGGAAGCTTG-TTGTCATTGTTTCT
genomic: CCACACTGCTGCAACTCTTGCAAACTCTTTTAGgttggaacac ... ttgtttgcagGTTAATCATTTAGTCACTGTATTGTGAGGAAGCTTGTTTGTCATTGTTTCT
EST: gi|213597851|gb|DB962204.1|DB962204
EST:     ACAGGTCAATTTGCTGTCCACACTGCTGCAACTCTTGCAAACTCTTTTAG                         GTTAATCATTTAGTCACTGTATTGTGAGGAAGCTTGTTTGTCATTGTTTCT
genomic: ACAGGTCAATTTGCTGTCCACACTGCTGCAACTCTTGCAAACTCTTTTAGgttggaacac ... ttgtttgcagGTTAATCATTTAGTCACTGTATTGTGAGGAAGCTTGTTTGTCATTGTTTCT
EST: gi|209726426|gb|BW662803.1|BW662803
EST:     ACAGGTCAATTTGCTGTCCACACTGCTGCAACTCTTGCAAACTCTTTTAG                         GTTAATCATTTAGTCACTGTATTGTGAGGAAGCTTGTTTGTCATTGTTTCT
genomic: ACAGGTCAATTTGCTGTCCACACTGCTGCAACTCTTGCAAACTCTTTTAGgttggaacac ... ttgtttgcagGTTAATCATTTAGTCACTGTATTGTGAGGAAGCTTGTTTGTCATTGTTTCT
EST: gi|213589513|gb|DB965785.1|DB965785
EST:     ACAGGTCAATTTGCTGTCCACACTGCTGCAACTCTTGCAAACTCTTTTAG                         GTTAATCATTTAGTCACTGTATTGTGAGGAAGCTTGTTTGTCATTGTTTCT
genomic: ACAGGTCAATTTGCTGTCCACACTGCTGCAACTCTTGCAAACTCTTTTAGgttggaacac ... ttgtttgcagGTTAATCATTTAGTCACTGTATTGTGAGGAAGCTTGTTTGTCATTGTTTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaaagtaatgattttctgtatctcttttgctgactgctcttcccttgtttgcagGTTAATCATTTAGTCACTGTATTGTGAGGAAGCTTGTTTGTCATTGTTTCTAATTTGAAGTACTGGGTTTGCTACATTAAGTGGGGTTTTGAGTGGTGAA
                            tgctgac  putative branch site (score: 2)
                                  ctgctcttcccttgtt  CT-rich tract
      taatgatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttattcctttgagcactatgatttaatcaaaagtcaaaacaataacaaagtaatgattttctgtatctcttttgctgactgctcttcccttgtttgcagGTTAATCATTTAGTCACTGTATTGTGAGGAAGCTTGTTTGTCATTGTTTCTAATTTGAAGTACTGGGTTTGCTACATTAAGTGGGGTTTTGAGTGGTGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - -tcctttg
- - - - - - - - - - - - - - - - - - aaaacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctgact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcttcc