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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caatttcgcccccctccctcaaatttctttatgtaattattaacttgtttactaaataaaggaaaattaaaatatgtaaattctggttcttgttttacagGCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAAAAGTATCTCATAACTTTTCAGGCTGAAGAA

Basic information

species Glycine max
transcript GLYMA16G18440.1
intron # 3
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|12496615|gb|BG047153.1|BG047153
EST:     CAGTGCAGATCAAAAGGCCAGCTGACCTAACTCCTAAAAAGTCACAAAAG                         GCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAACAGTAT
genomic: CAGTGCAGATCAAAAGGCCAGCTGACCTAACTCCTAAAAAGTCACAAAAGgtatcattgt ... tgttttacagGCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAAAAGTAT
EST: gi|192322959|gb|FK016690.1|FK016690
EST:     CAGTGCAGATCAAAAGGCCAGCTGACCTAACTCCTAAAAAGTCACAAAAG                         GCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAAAAGTAT
genomic: CAGTGCAGATCAAAAGGCCAGCTGACCTAACTCCTAAAAAGTCACAAAAGgtatcattgt ... tgttttacagGCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAAAAGTAT
EST: gi|192326148|gb|FK016265.1|FK016265
EST:     CAGTGCAGATCAAAAGGCCAGCTGACCTAACTCCTAAAAAGTCACAAAAG                         GCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAAAAGTAT
genomic: CAGTGCAGATCAAAAGGCCAGCTGACCTAACTCCTAAAAAGTCACAAAAGgtatcattgt ... tgttttacagGCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAAAAGTAT
EST: gi|192296023|gb|FG989417.1|FG989417
EST:     CAGTGCAGATCAAAAGGCCAGCTGACCTAACTCCTAAAAAGTCACAAAAG                         GCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAAAAGTAT
genomic: CAGTGCAGATCAAAAGGCCAGCTGACCTAACTCCTAAAAAGTCACAAAAGgtatcattgt ... tgttttacagGCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAAAAGTAT
EST: gi|16345083|gb|BI970678.1|BI970678
EST:     CAGTGCAGATCAAAAGGCCAGCTGACCTAACTCCTAAAAAGTCACAAAAG                         GCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAAAAGTAT
genomic: CAGTGCAGATCAAAAGGCCAGCTGACCTAACTCCTAAAAAGTCACAAAAGgtatcattgt ... tgttttacagGCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAAAAGTAT
EST: gi|192323212|gb|FK016343.1|FK016343
EST:     CAGTGCAGATCAAAAGGCCAGCTGACCTAACTCCTAAAAAGTCACAAAAG                         GCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAAAAGTAT
genomic: CAGTGCAGATCAAAAGGCCAGCTGACCTAACTCCTAAAAAGTCACAAAAGgtatcattgt ... tgttttacagGCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAAAAGTAT
EST: gi|192327498|gb|FK019625.1|FK019625
EST:     CAGTGCAGATCAAAAGGCCAGCTGACCTAACTCCTAAAAAGTCACAAAAG                         GCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGCGTCTCGAAAAGTAT
genomic: CAGTGCAGATCAAAAGGCCAGCTGACCTAACTCCTAAAAAGTCACAAAAGgtatcattgt ... tgttttacagGCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAAAAGTAT
EST: gi|7640437|gb|AW734739.1|AW734739
EST:     CAGTGCAGATCAAAAGGCCAGCTGACCTAACTCCTAAAAAGTCACAAAAG                         GCTGGTTCTTCAGTTGATGAANTTTTGCGGTCCTTGTGTCTCGAAAAGTAT
genomic: CAGTGCAGATCAAAAGGCCAGCTGACCTAACTCCTAAAAAGTCACAAAAGgtatcattgt ... tgttttacagGCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAAAAGTAT
EST: gi|192329317|gb|FK020236.1|FK020236
EST:     CAGTGCAGATCAAAAGGCCAGCTGACCTAACTCCTAAAAAGTCACAAAAG                         GCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAAAAGTAT
genomic: CAGTGCAGATCAAAAGGCCAGCTGACCTAACTCCTAAAAAGTCACAAAAGgtatcattgt ... tgttttacagGCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAAAAGTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttactaaataaaggaaaattaaaatatgtaaattctggttcttgttttacagGCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAAAAGTATCTCATAACTTTTCAGGCTGAAGAA
    tactaaa  putative branch site (score: 1)
                                         ttcttgtttt  putative PPT
     actaaataaaggaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caatttcgcccccctccctcaaatttctttatgtaattattaacttgtttactaaataaaggaaaattaaaatatgtaaattctggttcttgttttacagGCTGGTTCTTCAGTTGATGAATTTTTGCGGTCCTTGTGTCTCGAAAAGTATCTCATAACTTTTCAGGCTGAAGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA