Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gctgttctgagttctgagttgcgttggtgtatcggcttgtgcagtgccatatgaaatctgtcggttgggcttagttattgtcctgttgggttcttttcagGAGCTTTTACTACGAATGTTGTTGCTGCTGCACCAGTTTTGTACTGTAAGCGTGTCCTTAATTCATCAAAAACA

Basic information

species Oryza sativa
transcript LOC_Os03g17120.1
intron # 2
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|88412169|gb|CI573445.1|CI573445
EST:     GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGG                         GAGCTTTTACTACGAATGTTGTTGCTGCTGCACCAGTTTTGTA
genomic: GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGGgtaaaggcta ... ttcttttcagGAGCTTTTACTACGAATGTTGTTGCTGCTGCACCAGTTTTGTA
EST: gi|86901578|gb|CI308559.1|CI308559
EST:     GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGG                         GAGCTTTTACTACGAATGTTGTTGCTGCTGCACCAGT
genomic: GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGGgtaaaggcta ... ttcttttcagGAGCTTTTACTACGAATGTTGTTGCTGCTGCACCAGT
EST: gi|88433054|gb|CI569723.1|CI569723
EST:     GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGG                         GAGCTTTTACTACGAATGTTGTTGCTGCTGCACCAGTTTTGTACTGTAAGC
genomic: GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGGgtaaaggcta ... ttcttttcagGAGCTTTTACTACGAATGTTGTTGCTGCTGCACCAGTTTTGTACTGTAAGC
EST: gi|88358225|gb|CI605150.1|CI605150
EST:     GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGG                         GAGCTTTTACTACGAATGTTGTTGCTGCTGCACCAGTTTTGTACTGTAAGC
genomic: GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGGgtaaaggcta ... ttcttttcagGAGCTTTTACTACGAATGTTGTTGCTGCTGCACCAGTTTTGTACTGTAAGC
EST: gi|88720332|gb|CI743631.1|CI743631
EST:     AAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGCTCGCGG                         GAGCTTTTACTACGAATGTTGTTGNTGCTGCACCAGTTTTGTACTGTAAG
genomic: AAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTG-TCGCGGgtaaaggcta ... ttcttttcagGAGCTTTTACTACGAATGTTGTTGCTGCTGCACCAGTTTTGTACTGTAAG
EST: gi|88443537|gb|CI597004.1|CI597004
EST:     GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGG                         GAGCTTTTACTACGAATGTTGTTGCTGCTGCACCAGTTTTGTACTGTAAGC
genomic: GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGGgtaaaggcta ... ttcttttcagGAGCTTTTACTACGAATGTTGTTGCTGCTGCACCAGTTTTGTACTGTAAGC
EST: gi|58662721|gb|CK051407.1|CK051407
EST:     GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGG                         GAGCTTTTACTACGAATGTTGTTGCTGCTGCACC
genomic: GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGGgtaaaggcta ... ttcttttcagGAGCTTTTACTACGAATGTTGTTGCTGCTGCACC
EST: gi|88358912|gb|CI619416.1|CI619416
EST:     GAAGCCCGACCTTGCGCTGGTCGCCTGAGACGTCGACGCCACTGTCGCGG                         GAGCTTTTACTACGAATGTTGTTGCTG
genomic: GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGGgtaaaggcta ... ttcttttcagGAGCTTTTACTACGAATGTTGTTGCTG
EST: gi|29613226|gb|CB618239.1|CB618239
EST:     GAAGCCCGACCTTGCGCTGGTCGCCTGCAACGTCGACGCCACTGTCGCGG                         GAGCTTTTACTACGAATGTTGTTGCTGCTGCACCAGTTTTGTACTGTAAGC
genomic: GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGGgtaaaggcta ... ttcttttcagGAGCTTTTACTACGAATGTTGTTGCTGCTGCACCAGTTTTGTACTGTAAGC
EST: gi|88389112|gb|CI595346.1|CI595346
EST:     GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGG                         GAGCTTTTACTACGAATG
genomic: GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGGgtaaaggcta ... ttcttttcagGAGCTTTTACTACGAATG
EST: gi|88392288|gb|CI612762.1|CI612762
EST:     GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGG                         GAGCTTTTACTACGAATGTTGTTGCTGCTGCACCAGTTTTGTACTGTAAGC
genomic: GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGGgtaaaggcta ... ttcttttcagGAGCTTTTACTACGAATGTTGTTGCTGCTGCACCAGTTTTGTACTGTAAGC
EST: gi|88741107|gb|CI764615.1|CI764615
EST:     GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGG                         GAGCTTTNACTACGAAT
genomic: GAAGCCCGACCTTGCGCTGGTCGCCTGCGACGTCGACGCCACTGTCGCGGgtaaaggcta ... ttcttttcagGAGCTTTTACTACGAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gccatatgaaatctgtcggttgggcttagttattgtcctgttgggttcttttcagGAGCTTTTACTACGAATGTTGTTGCTGCTGCACCAGTTTTGTACTGTAAGCGTGTCCTTAATTCATCAAAAACA
                                             ttcttttc  CT-rich tract
                         ttagttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gctgttctgagttctgagttgcgttggtgtatcggcttgtgcagtgccatatgaaatctgtcggttgggcttagttattgtcctgttgggttcttttcagGAGCTTTTACTACGAATGTTGTTGCTGCTGCACCAGTTTTGTACTGTAAGCGTGTCCTTAATTCATCAAAAACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC