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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCCCCCTACTCAAACAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAACTACgtgagttaactcagatttttatttttgcttcctttttaactctttaacatagcagatgcaattattatttgaagatgtattgctttatcagtttagttgt...

Basic information

species Oryza sativa
transcript LOC_Os09g24200.1
intron # 4
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|58672603|gb|CK061289.1|CK061289
EST:     ACAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAACTAC                         TGTACCTGTCACTGTCAGTGCTCCTACCCCAACTGCCACAGCTTCCCCAGC
genomic: ACAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAACTACgtgagttaac ... ttaattgaagTGTACCTGTCACTGTCAGTGCTCCTACCCCAACTGCCACAGCTTCCCCAGC
EST: gi|33691318|gb|CF319557.1|CF319557
EST:     ACAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAACTAC                         TGTACCTGTCACTGTCAGTGCTCCTACCCCAACTGCCACAGCTTCCCCAGC
genomic: ACAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAACTACgtgagttaac ... ttaattgaagTGTACCTGTCACTGTCAGTGCTCCTACCCCAACTGCCACAGCTTCCCCAGC
EST: gi|56157493|gb|D24336.3|D24336
EST:     ACAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCANCAGCAACTAC                         TGTACCTGTCACTGTCAGTGCTCCTACCCCAACTGGCCACAGCTTCCCCAG
genomic: ACAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAACTACgtgagttaac ... ttaattgaagTGTACCTGTCACTGTCAGTGCTCCTACCCCAACTG-CCACAGCTTCCCCAG
EST: gi|88317010|gb|CI625647.1|CI625647
EST:     CAGTGCCGTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAAGTAC                         TGTACCTGTCACTGTCAGTGC
genomic: CAGTGCC-TGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAACTACgtgagttaac ... ttaattgaagTGTACCTGTCACTGTCAGTGC
EST: gi|58686007|gb|CK074694.1|CK074694
EST:     ACAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAACTAC                         TGTACCTGTCACTGTCAGTGCTCCTACCCCAACTGCCACAGCTTCCCCAGC
genomic: ACAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAACTACgtgagttaac ... ttaattgaagTGTACCTGTCACTGTCAGTGCTCCTACCCCAACTGCCACAGCTTCCCCAGC
EST: gi|88377574|gb|CI605409.1|CI605409
EST:     ACAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAACTAC                         TGTACCTGTCACTGTCAGTGCTCCTACCCCAACTGCCACAGCTTCCCCAGC
genomic: ACAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAACTACgtgagttaac ... ttaattgaagTGTACCTGTCACTGTCAGTGCTCCTACCCCAACTGCCACAGCTTCCCCAGC
EST: gi|58665783|gb|CK054469.1|CK054469
EST:     CAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGACAACTAC                         TGTACCTGTCACTGTCAGTGCTCCTACCCCAACTGCCACAGCTTCCCCAG
genomic: CAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAG-CAACTACgtgagttaac ... ttaattgaagTGTACCTGTCACTGTCAGTGCTCCTACCCCAACTGCCACAGCTTCCCCAG
EST: gi|86884299|gb|CI311704.1|CI311704
EST:     ACAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAACTAC                         TGTACCTGTCACTGTCAGTGCTCCTACCCCAACTGCCACAGCTTCCCCA
genomic: ACAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAACTACgtgagttaac ... ttaattgaagTGTACCTGTCACTGTCAGTGCTCCTACCCCAACTGCCACAGCTTCCCCA
EST: gi|29678389|gb|CB674664.1|CB674664
EST:     ACAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAACTAC                         TGTACCTGTCACTGTCAGTGCTCCTACCCCAACTGCCACAGCTTCCCCAGC
genomic: ACAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAACTACgtgagttaac ... ttaattgaagTGTACCTGTCACTGTCAGTGCTCCTACCCCAACTGCCACAGCTTCCCCAGC
EST: gi|58609238|gb|CK037271.1|CK037271
EST:     ACAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAACTAC                         TGTACCTGTCACTGTCAGTGCTCCTACCCCAACTGCCACAGATTCCCCAGC
genomic: ACAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAACTACgtgagttaac ... ttaattgaagTGTACCTGTCACTGTCAGTGCTCCTACCCCAACTGCCACAGCTTCCCCAGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTCCCCCTACTCAAACAGTGCCTGCAGCTCCTGCATCTCAAGCACCAGTTGCACCAGCAACTACgtgagttaactcagatttttatttttgcttcctttttaactctttaacatagcagatgcaattattatttgaagatgtattgctttatcagtttagttgt

- - - - - - - - - - - CTGCAG
- - - - - - - - - - - - GCAGCT
- - - - - - - - - - - -  CAGCTC