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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttgtgcctggtaaattaggtttgtttattaggttagtcagacactgctgcttgatgatgcttttgtgacattgttttttatgtaatacacaactgcagGTATCTGTATTCTTTGACATTATTTTCATTATTCAACATTATGTTCTGTATCGTGGTAAAAAATCCTCCAAATTGGAGATCACTACAGAGCAAGAAGATC

Basic information

species Glycine max
transcript GLYMA16G07110.1
intron # 7
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|192294741|gb|FG986590.1|FG986590
EST:     ATTCATGGGTCAACTTCTATGGGAATATAGGAAAAGTGTTGCTATCTTTG                         GTATCTGTATTCTTTGACATTATTTTCATTATTCAACATTATGTTCTGTAT
genomic: ATTCATGGGTCAACTTCTATGGGAATATAGGAAAAGTGTTGCTATCTTTGgtatgggaag ... acaactgcagGTATCTGTATTCTTTGACATTATTTTCATTATTCAACATTATGTTCTGTAT
EST: gi|254347046|gb|GR856716.1|GR856716
EST:     ATTCATGGGTCAACTTCTATGGGAATATAGGAAAAGTGTTGCTATCTTTG                         GTATCTGTATTCTTTGACATTATTTTCATTATTCAACATTATGTTCTGTAT
genomic: ATTCATGGGTCAACTTCTATGGGAATATAGGAAAAGTGTTGCTATCTTTGgtatgggaag ... acaactgcagGTATCTGTATTCTTTGACATTATTTTCATTATTCAACATTATGTTCTGTAT
EST: gi|192313595|gb|FK005591.1|FK005591
EST:     ATTCATGGGTCAACTTCTATGGGGATATAGGAAAAGTGTTGCTATCTTTG                         GTATCTGTATTCTTTGACATTATTTTCATTATTCAACATTATGTTCTGTAT
genomic: ATTCATGGGTCAACTTCTATGGGAATATAGGAAAAGTGTTGCTATCTTTGgtatgggaag ... acaactgcagGTATCTGTATTCTTTGACATTATTTTCATTATTCAACATTATGTTCTGTAT
EST: gi|254327243|gb|GR836852.1|GR836852
EST:     ATTCATGGGTCAACTTCTATGGGAATATAGGAAAAGTGTTGCTATCTTTG                         GTATCTGTATTCTTTGACATTATTTTCATTATTCAACATTATGTTCTGTAT
genomic: ATTCATGGGTCAACTTCTATGGGAATATAGGAAAAGTGTTGCTATCTTTGgtatgggaag ... acaactgcagGTATCTGTATTCTTTGACATTATTTTCATTATTCAACATTATGTTCTGTAT
EST: gi|192306920|gb|FG999953.1|FG999953
EST:     ATTCATGGGTCAACTTCTATGGGAATATAGGAAAAGTGTTGCTATCTTTG                         GTATCTGTATTCTTTGACATTATTTTCATTATTCAACATTATGTTCTGTAT
genomic: ATTCATGGGTCAACTTCTATGGGAATATAGGAAAAGTGTTGCTATCTTTGgtatgggaag ... acaactgcagGTATCTGTATTCTTTGACATTATTTTCATTATTCAACATTATGTTCTGTAT
EST: gi|254327242|gb|GR836851.1|GR836851
EST:     ATTCATGGGTCAACTTCTATGGGAATATAGGAAAAGTGTTGCTATCTTTG                         GTATCTGTATTCTTTGACATTATTTTCATTATTCAACATTATGTTCTGTAT
genomic: ATTCATGGGTCAACTTCTATGGGAATATAGGAAAAGTGTTGCTATCTTTGgtatgggaag ... acaactgcagGTATCTGTATTCTTTGACATTATTTTCATTATTCAACATTATGTTCTGTAT
EST: gi|151401800|gb|EV271613.1|EV271613
EST:     ATTCATGGGTCAACTTCTATGGGA-TATAGGAAAAGTGTTGCTATCTTTG                         GTATCTGTATTCTTTGACAT-ATTTTCATTATTCA-CATT
genomic: ATTCATGGGTCAACTTCTATGGGAATATAGGAAAAGTGTTGCTATCTTTGgtatgggaag ... acaactgcagGTATCTGTATTCTTTGACATTATTTTCATTATTCAACATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgctgcttgatgatgcttttgtgacattgttttttatgtaatacacaactgcagGTATCTGTATTCTTTGACATTATTTTCATTATTCAACATTATGTTCTGTATCGTGGTAAAAAATCCTCCAAATTGGAGATCACTACAGAGCAAGAAGATC
     gcttgat  putative branch site (score: 5)
                          attgttttttatgtaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgtgcctggtaaattaggtttgtttattaggttagtcagacactgctgcttgatgatgcttttgtgacattgttttttatgtaatacacaactgcagGTATCTGTATTCTTTGACATTATTTTCATTATTCAACATTATGTTCTGTATCGTGGTAAAAAATCCTCCAAATTGGAGATCACTACAGAGCAAGAAGATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - gtgcctg
- - - - - - - - - - - - - - - - - - - - - -cactgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgct