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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGGCATCAGCGCGGGCACTAATGCTGGAGGTGGAATCAACCATCTGCGGCCCTCTACTTTGGATATACCTTCGCCAAGAGACTTCTTCTCGGTTTCCAGgtatggcatgtactgtgattatattgatggatccgatatcttgtgatcgatgcttgaaatgatttggtgaacgcaataag

Basic information

species Oryza sativa
transcript LOC_Os03g21140.1
intron # 7
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|32948198|gb|BP184770.1|BP184770
EST:     CCCTCTACTTTGGATATACCTTCGCCAAGAGACTTCTTCTCGGTTTCCAG                         --G-CTGGCCTCTGATCACGGAGCGATTGGGATGTAA
genomic: CCCTCTACTTTGGATATACCTTCGCCAAGAGACTTCTTCTCGGTTTCCAGgtatggcatg ... acgcaataagCAGGCTGGCCTCTGATCACGGAGCGATTGGGATGTAA
EST: gi|58659366|gb|CK048046.1|CK048046
EST:     CCCTCTACTTTGGATATACCTTCGCCAAGAGACTTCTTCTCGGTTTCCAG                         --G-CTGGCCTCTGATCACGGAGCGATTGGGATGTAAA
genomic: CCCTCTACTTTGGATATACCTTCGCCAAGAGACTTCTTCTCGGTTTCCAGgtatggcatg ... acgcaataagCAGGCTGGCCTCTGATCACGGAGCGATTGGGATGTAAA
EST: gi|86494717|gb|CI137350.1|CI137350
EST:     CCCTCTACTTTGGATATACCTTCGCCAAGAGACTTCTTCTCGGTTTCCAG                         --G-CTGGCCTCTGATCACGGAGCGATTGGGATGTAAAGTTCTCTGCAATG
genomic: CCCTCTACTTTGGATATACCTTCGCCAAGAGACTTCTTCTCGGTTTCCAGgtatggcatg ... acgcaataagCAGGCTGGCCTCTGATCACGGAGCGATTGGGATGTAAAGTTCTCTGCAATG
EST: gi|58664822|gb|CK053508.1|CK053508
EST:     CCCTCTACTTTGG--ATACCTTCGCCAAGAGACTTCTTCTCGGTTTCCAG                         CAGGCTGGCCTCTGATCACGGAGCGATTGGGATGTAAAGTTCTCTGCAATG
genomic: CCCTCTACTTTGGATATACCTTCGCCAAGAGACTTCTTCTCGGTTTCCAGgtatggcatg ... acgcaataagCAGGCTGGCCTCTGATCACGGAGCGATTGGGATGTAAAGTTCTCTGCAATG
EST: gi|86480759|gb|CI123392.1|CI123392
EST:     CCCTCTACTTTGGATATACCTTCGCCAAGAGACTTCTTCTCGGTTTCCAG                         --G-CTGGCCTCTGATCACGGAGCGATTGGGATGTAAAGTTCTCTGCAATG
genomic: CCCTCTACTTTGGATATACCTTCGCCAAGAGACTTCTTCTCGGTTTCCAGgtatggcatg ... acgcaataagCAGGCTGGCCTCTGATCACGGAGCGATTGGGATGTAAAGTTCTCTGCAATG
EST: gi|163925986|gb|EG712314.1|EG712314
EST:     CCCTCTACTTTGGATATACCTTCGCCAAGAGACTTCTTCTCGGTTTCCAG                         --G-CTGGCCTCTGATCACGGAGCGATTGGGATGTAAAGTTCTCTGCAATG
genomic: CCCTCTACTTTGGATATACCTTCGCCAAGAGACTTCTTCTCGGTTTCCAGgtatggcatg ... acgcaataagCAGGCTGGCCTCTGATCACGGAGCGATTGGGATGTAAAGTTCTCTGCAATG
EST: gi|88960042|gb|CI381920.1|CI381920
EST:     CCCTCTACTTTGGATATACCTTCGCCAAGAGACTTCTTCTCGGTTT-C--                         CAGGCTGGCCTCTGATCACGGAGCGATTGGGATGTAAAGTTCTCTGCAATG
genomic: CCCTCTACTTTGGATATACCTTCGCCAAGAGACTTCTTCTCGGTTTCCAGgtatggcatg ... acgcaataagCAGGCTGGCCTCTGATCACGGAGCGATTGGGATGTAAAGTTCTCTGCAATG
EST: gi|218490471|gb|FG964032.1|FG964032
EST:     CCCTCTACTTTGGATATACCTTCGCCAAGAGACTTCTTCTCGGTTTCCAG                         --G-CTGGCCTCTGATCACGGAGCGATTGGGATGTAAAGTTCTCTGCAATG
genomic: CCCTCTACTTTGGATATACCTTCGCCAAGAGACTTCTTCTCGGTTTCCAGgtatggcatg ... acgcaataagCAGGCTGGCCTCTGATCACGGAGCGATTGGGATGTAAAGTTCTCTGCAATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TAGGCATCAGCGCGGGCACTAATGCTGGAGGTGGAATCAACCATCTGCGGCCCTCTACTTTGGATATACCTTCGCCAAGAGACTTCTTCTCGGTTTCCAGgtatggcatgtactgtgattatattgatggatccgatatcttgtgatcgatgcttgaaatgatttggtgaacgcaataag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA