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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtgttcttatttgctaagcatgcctatgagtaaattttgtatgttgtctctgtttgcatatgattatagccaaatctatgaatcataagttggaaaccgttaagtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG

Basic information

species Oryza sativa
transcript LOC_Os10g40030.11
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|88521223|gb|CI448894.1|CI448894
EST:     GCACGAATTCTGAAG                         GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
genomic: GCACGAATTCTGAAGgtagtgttct ... gtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
EST: gi|29656761|gb|CB653036.1|CB653036
EST:     CCAAGCTTGCCAACATTTTGCACTCTACCGAGCTTGCACGAATTTTGAAG                         GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
genomic: CCAAGCTTGCCAACATTTTGCACTCTACCGAGCTTGCACGAATTCTGAAGgtagtgttct ... gtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
EST: gi|86842409|gb|CI335295.1|CI335295
EST:     CCAAGCTTGCCAACATTTTGCACTCTACCGAGCTTGCACGAATTCTGAAG                         GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
genomic: CCAAGCTTGCCAACATTTTGCACTCTACCGAGCTTGCACGAATTCTGAAGgtagtgttct ... gtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
EST: gi|86835581|gb|CI348038.1|CI348038
EST:     CCAAGCTTGCCAACATTTTGCACTCTACCGAGCTTGCACGAATTCTGAAG                         GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
genomic: CCAAGCTTGCCAACATTTTGCACTCTACCGAGCTTGCACGAATTCTGAAGgtagtgttct ... gtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
EST: gi|86864259|gb|CI334058.1|CI334058
EST:     TTTGCACTCTACCGAGCTTGCACGAATTCTGAAG                         GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
genomic: TTTGCACTCTACCGAGCTTGCACGAATTCTGAAGgtagtgttct ... gtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
EST: gi|88531802|gb|CI460315.1|CI460315
EST:     CTACCGAGCTTGCACGAATTGTGAAG                         GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
genomic: CTACCGAGCTTGCACGAATTCTGAAGgtagtgttct ... gtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
EST: gi|88506009|gb|CI433515.1|CI433515
EST:     CACGAATTCTGAAG                         GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
genomic: CACGAATTCTGAAGgtagtgttct ... gtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
EST: gi|38477927|gb|CF962060.1|CF962060
EST:     CCAAGCTTGCCAACATTTTGCACTCTACCGAGCTTGCACGAATTCTGAAG                         GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
genomic: CCAAGCTTGCCAACATTTTGCACTCTACCGAGCTTGCACGAATTCTGAAGgtagtgttct ... gtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
EST: gi|3764142|gb|AU030642.1|AU030642
EST:     CCAAGCTTGCCAACATTTTGCACTCTACCGAGCTTGCACGAATTCTGAAG                         GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
genomic: CCAAGCTTGCCAACATTTTGCACTCTACCGAGCTTGCACGAATTCTGAAGgtagtgttct ... gtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
EST: gi|29656760|gb|CB653035.1|CB653035
EST:     CCAAGCTTGCCAACATTTTGCACTCTACCGAGCTTGCACGAATTCTGAAG                         GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
genomic: CCAAGCTTGCCAACATTTTGCACTCTACCGAGCTTGCACGAATTCTGAAGgtagtgttct ... gtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
EST: gi|86832996|gb|CI333595.1|CI333595
EST:     CCAAGCTTGCCAACATTTTGCACTCTACCGAGCTTTCACGAATTGTGAAG                         GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
genomic: CCAAGCTTGCCAACATTTTGCACTCTACCGAGCTTGCACGAATTCTGAAGgtagtgttct ... gtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
EST: gi|88478793|gb|CI416064.1|CI416064
EST:     CTACCGAGCTTGCACGAATTCTGAAG                         GGAGATGGT-TGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
genomic: CTACCGAGCTTGCACGAATTCTGAAGgtagtgttct ... gtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
EST: gi|88525522|gb|CI452377.1|CI452377
EST:     CACGAATTCTGAAG                         GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
genomic: CACGAATTCTGAAGgtagtgttct ... gtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
EST: gi|88286185|gb|CI522485.1|CI522485
EST:     AGCTTGCACGAATTCTGAAG                         GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
genomic: AGCTTGCACGAATTCTGAAGgtagtgttct ... gtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
EST: gi|86863517|gb|CI345235.1|CI345235
EST:     CCAAGCTTGCCAACATTTTGCACTCTACCGAGCTTGCACGAATTCTGAAG                         GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
genomic: CCAAGCTTGCCAACATTTTGCACTCTACCGAGCTTGCACGAATTCTGAAGgtagtgttct ... gtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
EST: gi|86865757|gb|CI335450.1|CI335450
EST:     GCCAACATTTTGCACTCTACCGAGCTTGCACGAATTCTGAAG                         GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCCGTTTTGTTGGA
genomic: GCCAACATTTTGCACTCTACCGAGCTTGCACGAATTCTGAAGgtagtgttct ... gtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
EST: gi|86841577|gb|CI336520.1|CI336520
EST:     TTGCACGAATTCTGAAG                         GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGG-
genomic: TTGCACGAATTCTGAAGgtagtgttct ... gtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
EST: gi|86598223|gb|CI354840.1|CI354840
EST:     GCTTGCCAACATTTTGCACTCTACCGAGCTTGCACGAATTCTGAAG                         GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA
genomic: GCTTGCCAACATTTTGCACTCTACCGAGCTTGCACGAATTCTGAAGgtagtgttct ... gtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgattatagccaaatctatgaatcataagttggaaaccgttaagtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG
             aaatctat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtgttcttatttgctaagcatgcctatgagtaaattttgtatgttgtctctgtttgcatatgattatagccaaatctatgaatcataagttggaaaccgttaagtatgaatagGGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC