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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgattttagaatattttcatttgcatgcccatttgtgtatcacatatacttagtaccttgcttgatattttcagATAAACCAGACTCTAGATAGATCATTGTTTATATATGACAAATTGCAAGATCTGAAGGAACAAAACCTATGTATATGCTGCTATGATGATTCTGAAGATC

Basic information

species Glycine max
transcript GLYMA11G02580.1
intron # 23
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|193639239|gb|FK586460.1|FK586460
EST:     TTAGAATGTTGGTCCAAAATGGAAATTCGCTACTTCATGCACTGGAGAAG                         ATAAACCAGACTCTAGATAGATCATTGTTTATATATGACAAATTGCAAGAT
genomic: TTAGAATGTTGGTCCAAAATGGAAATTCGCTACTTCATGCACTGGAGAAGgttttgattt ... atattttcagATAAACCAGACTCTAGATAGATCATTGTTTATATATGACAAATTGCAAGAT
EST: gi|16105685|gb|BI893425.1|BI893425
EST:     TGTTGGTCCAAAATGGAAATTCGCTACTTCATGCACTGGGAGAAG                         ATAAACCAGACTCTAGATAGATCATTGTTTATATATGACAAATTGCAAGA
genomic: TGTTGGTCCAAAATGGAAATTCGCTACTTCATGCACT-GGAGAAGgttttgattt ... atattttcagATAAACCAGACTCTAGATAGATCATTGTTTATATATGACAAATTGCAAGA
EST: gi|24135932|gb|BU926442.1|BU926442
EST:     TTAGAATGTTGGTCCAAAATGGAAATTCGCTACTTCATGCACTGGAGAAG                         ATAAACCAGACTCTAGATAGATCATTGTTTATATATGACAAATTG
genomic: TTAGAATGTTGGTCCAAAATGGAAATTCGCTACTTCATGCACTGGAGAAGgttttgattt ... atattttcagATAAACCAGACTCTAGATAGATCATTGTTTATATATGACAAATTG
EST: gi|193523836|gb|FK481007.1|FK481007
EST:     TTAGAATGTTGGTCCAAAATGGAAATTCGCTACTTCATGCACTGGAGAAG                         ATAAACCAGACTCTAGATAGATCATTGTTTATATATGACAAATTGCAAGAT
genomic: TTAGAATGTTGGTCCAAAATGGAAATTCGCTACTTCATGCACTGGAGAAGgttttgattt ... atattttcagATAAACCAGACTCTAGATAGATCATTGTTTATATATGACAAATTGCAAGAT
EST: gi|151399522|gb|EV269393.1|EV269393
EST:     TTAGAATGTTGGTCCAAAATGGAAATTCGCTACTTCATGCACTGGAGAAG                         ATAAACCAGACTCTAGATAGATCATTGTTTATATATGACAAATTGCAAGAT
genomic: TTAGAATGTTGGTCCAAAATGGAAATTCGCTACTTCATGCACTGGAGAAGgttttgattt ... atattttcagATAAACCAGACTCTAGATAGATCATTGTTTATATATGACAAATTGCAAGAT
EST: gi|193732959|gb|FK668624.1|FK668624
EST:     TTAGAATGTTGGTCCAAAATGGAAATTCGNTACTTCATGCACTGGAGAAG                         ATAAACCAGACTCTAGATAGATCATTGTTTATATATGACAAATTGCAAGAT
genomic: TTAGAATGTTGGTCCAAAATGGAAATTCGCTACTTCATGCACTGGAGAAGgttttgattt ... atattttcagATAAACCAGACTCTAGATAGATCATTGTTTATATATGACAAATTGCAAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgcatgcccatttgtgtatcacatatacttagtaccttgcttgatattttcagATAAACCAGACTCTAGATAGATCATTGTTTATATATGACAAATTGCAAGATCTGAAGGAACAAAACCTATGTATATGCTGCTATGATGATTCTGAAGATC
                                        gcttgat  putative branch site (score: 5)
                                              tattttc  CT-rich tract
                                          ttgatatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttttgattttagaatattttcatttgcatgcccatttgtgtatcacatatacttagtaccttgcttgatattttcagATAAACCAGACTCTAGATAGATCATTGTTTATATATGACAAATTGCAAGATCTGAAGGAACAAAACCTATGTATATGCTGCTATGATGATTCTGAAGATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA