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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACCTGGTGGGGTCTGCCGTGTTCTTCGCCGGCGGCTCGCCGAAGACGGGGGTCACCGTCGAGATCACCGTCTCCTACCTCGACGCAGCCCGTGCAAACgtaagtacagtacccgtgatcgagcttcggctgcttcgcgatggatattgatcgatcatgcatgcgtggtcgcag

Basic information

species Oryza sativa
transcript LOC_Os01g65950.1
intron # 2
splice site 5'
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|88542894|gb|CI472252.1|CI472252
EST:     GGGTCACCGTCGAGATCACCGTCTCCTACCTCGACGCAGCCCGTGCAAAC                         GAGGAGATCGAGATGGAGGCGAGGGTTCTGGGCATCGGCGAGACGACCGGG
genomic: GGGTCACCGTCGAGATCACCGTCTCCTACCTCGACGCAGCCCGTGCAAACgtaagtacag ... gtggtcgcagGAGGAGATCGAGATGGAGGCGAGGGTTCTGGGCATCGGCGAGACGACCGGG
EST: gi|117232032|gb|CT842043.1|CT842043
EST:     GGGTCACCGTCGAGATCACCGTCTCCTACCTCGACGCAGCCCGTGCAAAC                         GAGGAGATCGAGATGGAGGCGAGGGTTCTGGGCATCGGCGAGACGACCGGG
genomic: GGGTCACCGTCGAGATCACCGTCTCCTACCTCGACGCAGCCCGTGCAAACgtaagtacag ... gtggtcgcagGAGGAGATCGAGATGGAGGCGAGGGTTCTGGGCATCGGCGAGACGACCGGG
EST: gi|88549110|gb|CI478968.1|CI478968
EST:     GGGTCACCGTCGAGATCACCGTCTCCTACCTCGACGCAGCCCGTGCAAAC                         GAGGAGATCGAGATGGAGGCGAGGGTTCTGGGCATCGGCGAGACGACCGGG
genomic: GGGTCACCGTCGAGATCACCGTCTCCTACCTCGACGCAGCCCGTGCAAACgtaagtacag ... gtggtcgcagGAGGAGATCGAGATGGAGGCGAGGGTTCTGGGCATCGGCGAGACGACCGGG
EST: gi|88547700|gb|CI478016.1|CI478016
EST:     GGGTCACCGTCGAGATCACCGTCTCCTACCTCNACGCAGCCCGTGCAAAC                         GAGGAGATCGAGATGGAGGCGAGGGTTCTGGGCATCGGCGAGACGACCGGG
genomic: GGGTCACCGTCGAGATCACCGTCTCCTACCTCGACGCAGCCCGTGCAAACgtaagtacag ... gtggtcgcagGAGGAGATCGAGATGGAGGCGAGGGTTCTGGGCATCGGCGAGACGACCGGG
EST: gi|88560844|gb|CI491541.1|CI491541
EST:     GGGTCACCGTCGAGATCACCGTCTCCTACCTCGACGCAGCCCGTGCAAAC                         GAGGGAGGATTCGAGATGGGGAGGCGAGGGTTCTGGGCATTCGGCGAGACG
genomic: GGGTCACCGTCGAGATCACCGTCTCCTACCTCGACGCAGCCCGTGCAAACgtaagtacag ... gtggtcgcagGA-GGA-GA-TCGAGAT--GGAGGCGAGGGTTCTGGGCA-TCGGCGAGACG
EST: gi|88550986|gb|CI480477.1|CI480477
EST:     GGGTCACCGTCGAGATCACCGTCTCCTACCTCGACGCAGCCCGTGCAAAC                         GAGGAGATCGAGATGGAGGCGAGGGTTCTGGGCATCGGCGAGACGACCGGG
genomic: GGGTCACCGTCGAGATCACCGTCTCCTACCTCGACGCAGCCCGTGCAAACgtaagtacag ... gtggtcgcagGAGGAGATCGAGATGGAGGCGAGGGTTCTGGGCATCGGCGAGACGACCGGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGACCTGGTGGGGTCTGCCGTGTTCTTCGCCGGCGGCTCGCCGAAGACGGGGGTCACCGTCGAGATCACCGTCTCCTACCTCGACGCAGCCCGTGCAAACgtaagtacagtacccgtgatcgagcttcggctgcttcgcgatggatattgatcgatcatgcatgcgtggtcgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA