Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGCCGCGGATGTGCTGCCGTTCGTGGAGGCGGACCTGAAGAAGAGCTCCATGCGCGTCATCGAGAAGGCCAGGGAGCTCTGCGCCCAGgtgatccgagatcgaaccgaatcactcacttttttctacctctaatttgtttgtgtgcgctagtagctgttaatactccctaatcgtgctctatttttaa...

Basic information

species Oryza sativa
transcript LOC_Os12g36640.1
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|88981775|gb|CI027353.1|CI027353
EST:     AGAAGAGCTCCATGCGCGTCATCGAGAAGGCCAGGGAGCTCTGCGCCCAG                         GTGAGTGATGCTCTGTTTGAAGTGCTGGAAGGGGATGCCAGGAATGTTCTT
genomic: AGAAGAGCTCCATGCGCGTCATCGAGAAGGCCAGGGAGCTCTGCGCCCAGgtgatccgag ... tttgctgcagGTGAGTGATGCTCTGTTTGAAGTGCTGGAAGGGGATGCCAGGAATGTTCTT
EST: gi|88508997|gb|CI436503.1|CI436503
EST:     CTCTGCGCCCAG                         GTGAGTAATGCTCTGTTTGAAGTGCTGGAAGGGAATGCCAGGAATNTTCTT
genomic: CTCTGCGCCCAGgtgatccgag ... tttgctgcagGTGAGTGATGCTCTGTTTGAAGTGCTGGAAGGGGATGCCAGGAATGTTCTT
EST: gi|86424109|gb|CI062870.1|CI062870
EST:     AGAAGAGCTCCATGCGCGTCATCGAGAAGGCCAGGGAGCTCTGCGCCCAG                         GTGAGTGATGCTCTGTTTGAAGTGCTGGAAGGGGATGCCAGGAATGTTCTT
genomic: AGAAGAGCTCCATGCGCGTCATCGAGAAGGCCAGGGAGCTCTGCGCCCAGgtgatccgag ... tttgctgcagGTGAGTGATGCTCTGTTTGAAGTGCTGGAAGGGGATGCCAGGAATGTTCTT
EST: gi|8860142|gb|AU097460.1|AU097460
EST:     AGAAGAGCTCCATGCGCGTCATCGAGAAGGCCAGGGAGCTCTGCGCCCAG                         GTGAGTGATGCTCTGTTTGAAGTGCTGGAAGGGGATGCCAGGAATGTTCTT
genomic: AGAAGAGCTCCATGCGCGTCATCGAGAAGGCCAGGGAGCTCTGCGCCCAGgtgatccgag ... tttgctgcagGTGAGTGATGCTCTGTTTGAAGTGCTGGAAGGGGATGCCAGGAATGTTCTT
EST: gi|218498665|gb|FG952674.1|FG952674
EST:     AGAAGAGCTCCATGCGCGTCATCGAGAAGGCCAGCGAGCTCTGCGCCCAG                         GTGAGTGATGCTCTGTTTGAAGTGCTGGAAGGGGATGCCAGGAATGTTCTT
genomic: AGAAGAGCTCCATGCGCGTCATCGAGAAGGCCAGGGAGCTCTGCGCCCAGgtgatccgag ... tttgctgcagGTGAGTGATGCTCTGTTTGAAGTGCTGGAAGGGGATGCCAGGAATGTTCTT
EST: gi|29623326|gb|CB628337.1|CB628337
EST:     AGAAGAGCTCCATGCGCGTCATCGAGAAGGCCAGGGAGCTCTGCGCCCAG                         GTGAGTGATGCTCTGTTTGAAGTGCTTGAAGGGGATGCCAGGAATGTTCTT
genomic: AGAAGAGCTCCATGCGCGTCATCGAGAAGGCCAGGGAGCTCTGCGCCCAGgtgatccgag ... tttgctgcagGTGAGTGATGCTCTGTTTGAAGTGCTGGAAGGGGATGCCAGGAATGTTCTT
EST: gi|58031113|gb|CX728656.1|CX728656
EST:     CTCTGCGCCCAG                         GTGAGTGATGCTCTGTTTGAAGTGCTGGAAGGGGATGCCAGGAATGTTCTT
genomic: CTCTGCGCCCAGgtgatccgag ... tttgctgcagGTGAGTGATGCTCTGTTTGAAGTGCTGGAAGGGGATGCCAGGAATGTTCTT
EST: gi|94362829|gb|CI052990.1|CI052990
EST:     AGAAGAGCTCCATGCGCGTCATCGAGAAGGCCAGGGAGCTCTGCGCCCAG                         GTGAGTGATGCTCTGTTTGAAGTGCTGGAAGGGGATGCCAGGAATGTTCTT
genomic: AGAAGAGCTCCATGCGCGTCATCGAGAAGGCCAGGGAGCTCTGCGCCCAGgtgatccgag ... tttgctgcagGTGAGTGATGCTCTGTTTGAAGTGCTGGAAGGGGATGCCAGGAATGTTCTT
EST: gi|29686559|gb|CB682834.1|CB682834
EST:     CTCTGCGCCCAG                         GCCATTGATGCTCTGTTTGAAGTGCTGGAAGGGGATGCCAGGAATGTTCTT
genomic: CTCTGCGCCCAGgtgatccgag ... tttgctgcagGTGAGTGATGCTCTGTTTGAAGTGCTGGAAGGGGATGCCAGGAATGTTCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCGCCGCGGATGTGCTGCCGTTCGTGGAGGCGGACCTGAAGAAGAGCTCCATGCGCGTCATCGAGAAGGCCAGGGAGCTCTGCGCCCAGgtgatccgagatcgaaccgaatcactcacttttttctacctctaatttgtttgtgtgcgctagtagctgttaatactccctaatcgtgctctatttttaa

- - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT