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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcaaatctgtaggtagtctagacaagcttctcttttgtgccttggccctgatattattaaagtatccctgcttagcaattaactggtagtctggcttcagGTGCACTAGGATCAACATGGACAGCAATCAATCTGGAGTAAGGGACAATATTCAGCTTTTGCTTTTCACAATTGCAGAGTTGGCTCTTGACAGCACATGA

Basic information

species Glycine max
transcript GLYMA02G17250.1
intron # 6
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|193434977|gb|FK402921.1|FK402921
EST:     GCTTCTTAGCCCCGTTGGACTTCCTTTACGTCCG                         GTGCACTAGGATCAACATGGACAGCAATCAATCTGGAGTAAGGGACAATAT
genomic: GCTTCTTAGCCCCGTTGGACTTCCTTTACGTCCGgtatgtatgg ... ctggcttcagGTGCACTAGGATCAACATGGACAGCAATCAATCTGGAGTAAGGGACAATAT
EST: gi|193516272|gb|FK472512.1|FK472512
EST:     ACCATATTGTGGCACCGCTTCTTAGCCCCGTTGGACTTCCTTTACGTCCG                         GTGCACTAGGATCAACATGGACAGCAATCAATCTGGAGTAAGGGACAATAT
genomic: ACCATATTGTGGCACCGCTTCTTAGCCCCGTTGGACTTCCTTTACGTCCGgtatgtatgg ... ctggcttcagGTGCACTAGGATCAACATGGACAGCAATCAATCTGGAGTAAGGGACAATAT
EST: gi|208328466|gb|GE132130.1|GE132130
EST:     ACCATATTGTGGCACCGCTTCTTAGCCCCGTTGGACTTCCTTTACGTCCG                         GTGCACTAGGATCAACATGGACAGCAATCAATCTGGAGTAAGGGACAATAT
genomic: ACCATATTGTGGCACCGCTTCTTAGCCCCGTTGGACTTCCTTTACGTCCGgtatgtatgg ... ctggcttcagGTGCACTAGGATCAACATGGACAGCAATCAATCTGGAGTAAGGGACAATAT
EST: gi|193387446|gb|FK352205.1|FK352205
EST:     GCTTCTTAGCCCCGTTGGACTTCCTTTACGTCCG                         GTGCACTAGGATCAACATGGACAGCAATCAATCTGGAGTAAGGGACAATAT
genomic: GCTTCTTAGCCCCGTTGGACTTCCTTTACGTCCGgtatgtatgg ... ctggcttcagGTGCACTAGGATCAACATGGACAGCAATCAATCTGGAGTAAGGGACAATAT
EST: gi|193418270|gb|FK383488.1|FK383488
EST:     ACCATATTGTGGCACCGCTTCTTAGCCCCGTTGGACTTCCTTTACGTCCG                         GTGCACTAGGATCAACATGGACAGCAATCAATCTGGAGTAAGGGACAATAT
genomic: ACCATATTGTGGCACCGCTTCTTAGCCCCGTTGGACTTCCTTTACGTCCGgtatgtatgg ... ctggcttcagGTGCACTAGGATCAACATGGACAGCAATCAATCTGGAGTAAGGGACAATAT
EST: gi|207726617|gb|GD701519.1|GD701519
EST:     GCTTCTTAGCCCCGTTGGACTTCCTTTACGTCCG                         GTGCACTAGGATCAACATGGACAGCAATCAATCTGGAGTAAGGGACAATAT
genomic: GCTTCTTAGCCCCGTTGGACTTCCTTTACGTCCGgtatgtatgg ... ctggcttcagGTGCACTAGGATCAACATGGACAGCAATCAATCTGGAGTAAGGGACAATAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccctgatattattaaagtatccctgcttagcaattaactggtagtctggcttcagGTGCACTAGGATCAACATGGACAGCAATCAATCTGGAGTAAGGGACAATATTCAGCTTTTGCTTTTCACAATTGCAGAGTTGGCTCTTGACAGCACATGA
                               aattaac  putative branch site (score: 2)
     atattattaaagtat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcaaatctgtaggtagtctagacaagcttctcttttgtgccttggccctgatattattaaagtatccctgcttagcaattaactggtagtctggcttcagGTGCACTAGGATCAACATGGACAGCAATCAATCTGGAGTAAGGGACAATATTCAGCTTTTGCTTTTCACAATTGCAGAGTTGGCTCTTGACAGCACATGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - -gcttctc
- - - - - - - - - - - - - - - - -tttgtgc
- - - - - - - - - - - - - - - - - - - - - - - cctgata