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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttccatctgcaagtctaaaaaaagtgtatgttatttgttgaatgtcttgccgactagataatattatgtttgctaattctttcatagcaaatgtgcagCCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGGAAGGAGATTATTACAACTACAGAGGCAGAGGGAGAGGCCGATTTAGAGG

Basic information

species Oryza sativa
transcript LOC_Os11g06760.1
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|38474629|gb|CF958762.1|CF958762
EST:     CGCTAATCGTGGAAGAGGCCGTGGTGGTGGCAGAAGAGGCAGGGGCAGAG                         CCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGG
genomic: CACTAATCGTGGAAGAGGCCGTGGTGGTGGCAGAAGAGGCAGGGGCAGAGgtatcctctt ... aaatgtgcagCCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGG
EST: gi|218484821|gb|FG946766.1|FG946766
EST:     CGCTAATCGTGGAAGAGGCCGTGGTGGTGGCAGAAGAGGCAGGGGCAGAG                         CCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGG
genomic: CACTAATCGTGGAAGAGGCCGTGGTGGTGGCAGAAGAGGCAGGGGCAGAGgtatcctctt ... aaatgtgcagCCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGG
EST: gi|25799906|gb|CA755867.1|CA755867
EST:     CACTAATCGTGGAAGAGGCCGTGGTGGTGGCAGAAGAGGCAGGGGCAGAG                         CCATGAGCAATGGTCCCCCCGCTTATGATTATNGCGAGGAGTGGGAAGAGG
genomic: CACTAATCGTGGAAGAGGCCGTGGTGGTGGCAGAAGAGGCAGGGGCAGAGgtatcctctt ... aaatgtgcagCCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGG
EST: gi|66916064|gb|CX102912.1|CX102912
EST:     CGCTAATCGTGGAAGAGGCCGTGGTGGTGGCAGAAGAGGCAGGGGCAGAG                         CCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGG
genomic: CACTAATCGTGGAAGAGGCCGTGGTGGTGGCAGAAGAGGCAGGGGCAGAGgtatcctctt ... aaatgtgcagCCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGG
EST: gi|13818900|gb|AB060279.1|AB060279
EST:     CACTAATCGTGGAAGAGGCCGTGGTGGTGGCAGAAGAGGCAGGGGCAGAG                         CCATGAGCAATGGTCCCCCCGCTTATGACTATGGCGAGGAGTGGGAAGAGG
genomic: CACTAATCGTGGAAGAGGCCGTGGTGGTGGCAGAAGAGGCAGGGGCAGAGgtatcctctt ... aaatgtgcagCCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGG
EST: gi|29677609|gb|CB673884.1|CB673884
EST:     CACTAATCGTGGAAGAGGCCGTGGTGGTGGCAGAAGAGGCAGGGGCAGAG                         CCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGG
genomic: CACTAATCGTGGAAGAGGCCGTGGTGGTGGCAGAAGAGGCAGGGGCAGAGgtatcctctt ... aaatgtgcagCCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGG
EST: gi|29677610|gb|CB673885.1|CB673885
EST:     CACTAATCGTGGAAGAGGCCGTGGTGGTGGCAGAAGAGGCAGGGGCAGAG                         CCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGG
genomic: CACTAATCGTGGAAGAGGCCGTGGTGGTGGCAGAAGAGGCAGGGGCAGAGgtatcctctt ... aaatgtgcagCCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGG
EST: gi|38474027|gb|CF958159.1|CF958159
EST:     CGCTAATCGTGGAAGAGGCCGTGGTGGTGGCAGAAGAGGCAGGGGCAGAG                         CCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGG
genomic: CACTAATCGTGGAAGAGGCCGTGGTGGTGGCAGAAGAGGCAGGGGCAGAGgtatcctctt ... aaatgtgcagCCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGG
EST: gi|8527776|gb|AU092591.1|AU092591
EST:     CACTAATCGTGGAAGAGGCCGTGGTGGTGGCAGAAGAGGCAGGGGCAGAG                         CCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGG
genomic: CACTAATCGTGGAAGAGGCCGTGGTGGTGGCAGAAGAGGCAGGGGCAGAGgtatcctctt ... aaatgtgcagCCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcttgccgactagataatattatgtttgctaattctttcatagcaaatgtgcagCCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGGAAGGAGATTATTACAACTACAGAGGCAGAGGGAGAGGCCGATTTAGAGG
                           tgctaat  putative branch site (score: 2)
              ataatattatgtttgc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttttccatctgcaagtctaaaaaaagtgtatgttatttgttgaatgtcttgccgactagataatattatgtttgctaattctttcatagcaaatgtgcagCCATGAGCAATGGTCCCCCCGCTTATGATTATGGCGAGGAGTGGGAAGAGGAAGGAGATTATTACAACTACAGAGGCAGAGGGAGAGGCCGATTTAGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG