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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgttttagtgtccagaaggcagaatttgttttaaattcctatttacggtgatctgaacataatcacttatcaactttgtatattgattcccttttggcagCTTCCCTGGCTAAATAAGCAAGTCAGGTCTGCTATTTGTCTCACAAGTGACGACCATTTCTTTCTGCATTGGAGATATATTAAATCTGTCCTTTGGGGGT

Basic information

species Glycine max
transcript GLYMA03G38830.1
intron # 12
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|6666101|gb|AW277560.1|AW277560
EST:     TGAATGGATGCTGCAGATATCCCGACAAGTGCAGCAATCATAATATATAG                         CTTCCCTGGCTAAATAAGCAAGTCAGGTCTGCTATTTGTCTCACAAGTGAC
genomic: TGAATGGATGCTGCAGATATCCCGACAAGTGCAGCAATCATAATATATAGgtatgcgtga ... cttttggcagCTTCCCTGGCTAAATAAGCAAGTCAGGTCTGCTATTTGTCTCACAAGTGAC
EST: gi|31458197|gb|CD400225.1|CD400225
EST:     TGAATGGATGCTGCAGATATCCCGACAAGTGCAGCAATCATAATATATAG                         CTTCCCTGGCTAAATAAGCAAGTCAGGTCTGCTATTTGTCTCACAAGTGAC
genomic: TGAATGGATGCTGCAGATATCCCGACAAGTGCAGCAATCATAATATATAGgtatgcgtga ... cttttggcagCTTCCCTGGCTAAATAAGCAAGTCAGGTCTGCTATTTGTCTCACAAGTGAC
EST: gi|193446143|gb|FK412268.1|FK412268
EST:     AGCAATCATAATATATAG                         CTTCCCTGGCTAAATAAGCAAGTCAGATCTGCTATTTGTCTCACAAGTGAC
genomic: AGCAATCATAATATATAGgtatgcgtga ... cttttggcagCTTCCCTGGCTAAATAAGCAAGTCAGGTCTGCTATTTGTCTCACAAGTGAC
EST: gi|6915256|gb|AW396786.1|AW396786
EST:     GATATCCCGACAAGTGCAGCAATCATAATATATAG                         CTTCCCTGGCTAAATAAGCAAGTCAGGTCTGCTATTTGTCTCACAAGTGAC
genomic: GATATCCCGACAAGTGCAGCAATCATAATATATAGgtatgcgtga ... cttttggcagCTTCCCTGGCTAAATAAGCAAGTCAGGTCTGCTATTTGTCTCACAAGTGAC
EST: gi|11412398|gb|BF424409.1|BF424409
EST:     TGAATGGATGCTGCAGATATCCCGACAAGTGCAGCAATCATAATATATAG                         CTTCCCTGGCTAAATAAGCAAGTCAGGTCTGCTATTTGTCTCACAAGTGAC
genomic: TGAATGGATGCTGCAGATATCCCGACAAGTGCAGCAATCATAATATATAGgtatgcgtga ... cttttggcagCTTCCCTGGCTAAATAAGCAAGTCAGGTCTGCTATTTGTCTCACAAGTGAC
EST: gi|31306347|gb|CD391550.1|CD391550
EST:     TGAATGGATGCTGCAGATATCCCGACAAGTGCAGCAATCATAATATATAG                         CTTCCCTGGCTAAATAAGCAAGTCAGGTCTGCTATTTGTCTCACAAGTGAC
genomic: TGAATGGATGCTGCAGATATCCCGACAAGTGCAGCAATCATAATATATAGgtatgcgtga ... cttttggcagCTTCCCTGGCTAAATAAGCAAGTCAGGTCTGCTATTTGTCTCACAAGTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cggtgatctgaacataatcacttatcaactttgtatattgattcccttttggcagCTTCCCTGGCTAAATAAGCAAGTCAGGTCTGCTATTTGTCTCACAAGTGACGACCATTTCTTTCTGCATTGGAGATATATTAAATCTGTCCTTTGGGGGT
                                   tattgat  putative branch site (score: 3)
                                         ttccctttt  CT-rich tract
                             tttgtatattgatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgttttagtgtccagaaggcagaatttgttttaaattcctatttacggtgatctgaacataatcacttatcaactttgtatattgattcccttttggcagCTTCCCTGGCTAAATAAGCAAGTCAGGTCTGCTATTTGTCTCACAAGTGACGACCATTTCTTTCTGCATTGGAGATATATTAAATCTGTCCTTTGGGGGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT