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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtttcactcatccataccatcatcaagaaataacatgcttctaccatgaaattaaagatgtaatactatttgcagCAATCGTTAGTTTTGGGAAGGTAACTCAGGAACAAAAGGAAAATGCCTCCAAATATGGGCTGGAGATCTATTCATGGGATGAATTTCTTTCTTTG

Basic information

species Oryza sativa
transcript LOC_Os01g46750.2
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|58691021|gb|CK079708.1|CK079708
EST:     ATCTTCAAGACTTTCCCCAAGTCAGCTGAATTCTTGAAAA                         CAATCGTTAGTTTTGGGAAGGTAACTCAGGAACAAAAGGAAAATGCCTCCA
genomic: ATCTTCAAGACTTTCCCCAAGTCAGCTGAATTCTTGAAAAgtaggtttca ... ctatttgcagCAATCGTTAGTTTTGGGAAGGTAACTCAGGAACAAAAGGAAAATGCCTCCA
EST: gi|29673146|gb|CB669421.1|CB669421
EST:     AGCTGAATTCTTG-CAA                         TAATCGTTAGTTTTGGGAAGGTAACTCAGGAACAAAAGGAAAATGCCTCCA
genomic: AGCTGAATTCTTGAAAAgtaggtttca ... ctatttgcagCAATCGTTAGTTTTGGGAAGGTAACTCAGGAACAAAAGGAAAATGCCTCCA
EST: gi|29618098|gb|CB623110.1|CB623110
EST:     ATCTTCAAGACTTTCCCCAAGTCAGCTGAATTCTTGAAAA                         CAATCGTTAGTTTTGGGAAGGTAACTCAGGAACAAAAGGAAAATGCCTCCA
genomic: ATCTTCAAGACTTTCCCCAAGTCAGCTGAATTCTTGAAAAgtaggtttca ... ctatttgcagCAATCGTTAGTTTTGGGAAGGTAACTCAGGAACAAAAGGAAAATGCCTCCA
EST: gi|88349500|gb|CI653779.1|CI653779
EST:     ATCTTCAAGACTTTCCCCAAGTCAGCTGAATTCTTGAAAA                         CAATCGTTAGTTTTGGGAAGGTAACTCAGGAACAAAAGGAAAATGCCTCCA
genomic: ATCTTCAAGACTTTCCCCAAGTCAGCTGAATTCTTGAAAAgtaggtttca ... ctatttgcagCAATCGTTAGTTTTGGGAAGGTAACTCAGGAACAAAAGGAAAATGCCTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catcaagaaataacatgcttctaccatgaaattaaagatgtaatactatttgcagCAATCGTTAGTTTTGGGAAGGTAACTCAGGAACAAAAGGAAAATGCCTCCAAATATGGGCTGGAGATCTATTCATGGGATGAATTTCTTTCTTTG
       aaataac  putative branch site (score: 2)
                            aaattaaagatgtaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggtttcactcatccataccatcatcaagaaataacatgcttctaccatgaaattaaagatgtaatactatttgcagCAATCGTTAGTTTTGGGAAGGTAACTCAGGAACAAAAGGAAAATGCCTCCAAATATGGGCTGGAGATCTATTCATGGGATGAATTTCTTTCTTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC