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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCCAAAGGCCCCCTGGTGCATTGCCGTCATCTATGCTAGGATATGAGGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattgctgtcctttgatttcccctgaatcttattgcttgcttttcacatttctttgcaactatttgggaaccaacttttgcttatttattatatt...

Basic information

species Oryza sativa
transcript LOC_Os02g55770.4
intron # 3
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|88451519|gb|CI565572.1|CI565572
EST:     GGCACTGACTGGTTCCTTATATGATTTTGGGTTTGAAGATTATCTTAACT                         AAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
genomic: GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattg ... acttataaagAAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
EST: gi|88718299|gb|CI741388.1|CI741388
EST:     GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACT                         AAGAA-AAA--TAAGGATTCAAGCA
genomic: GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattg ... acttataaagAAGAAGAAAAATAAGGATTCAAGCA
EST: gi|88577142|gb|CI673698.1|CI673698
EST:     GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACT                         AAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
genomic: GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattg ... acttataaagAAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
EST: gi|88355497|gb|CI679216.1|CI679216
EST:     GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACT                         AAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
genomic: GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattg ... acttataaagAAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
EST: gi|88392100|gb|CI683931.1|CI683931
EST:     GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACT                         AAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGG-AGGCC
genomic: GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattg ... acttataaagAAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
EST: gi|88720299|gb|CI743598.1|CI743598
EST:     GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACT                         AAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCACCCGGCGAGGGAGGCC
genomic: GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattg ... acttataaagAAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
EST: gi|88580382|gb|CI697306.1|CI697306
EST:     GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACT                         AAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGA
genomic: GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattg ... acttataaagAAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGA
EST: gi|88355496|gb|CI679215.1|CI679215
EST:     GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACT                         AAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
genomic: GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattg ... acttataaagAAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
EST: gi|88458095|gb|CI695047.1|CI695047
EST:     GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACT                         AAGAAGAAAAATAAGGATTCAAGCACCAACAAGCAGCCGGCGAGG-AGGC
genomic: GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattg ... acttataaagAAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGC
EST: gi|88301009|gb|CI592189.1|CI592189
EST:     GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACT                         AAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGC
genomic: GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattg ... acttataaagAAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGC
EST: gi|88390036|gb|CI590549.1|CI590549
EST:     GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACT                         AAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGGCGGCGAGGGAG
genomic: GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattg ... acttataaagAAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAG
EST: gi|88340704|gb|CI647582.1|CI647582
EST:     GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACT                         AAGAAGAAAAATAAGGATTCAAGC
genomic: GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattg ... acttataaagAAGAAGAAAAATAAGGATTCAAGC
EST: gi|88742052|gb|CI765560.1|CI765560
EST:     GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACT                         AAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
genomic: GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattg ... acttataaagAAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
EST: gi|88386481|gb|CI575259.1|CI575259
EST:     GGCACTGAGTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACT                         AAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
genomic: GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattg ... acttataaagAAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
EST: gi|88417142|gb|CI576216.1|CI576216
EST:     GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACT                         AAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
genomic: GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattg ... acttataaagAAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
EST: gi|88364543|gb|CI644621.1|CI644621
EST:     GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACT                         AAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
genomic: GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattg ... acttataaagAAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
EST: gi|88433839|gb|CI584334.1|CI584334
EST:     GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACT                         AAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC
genomic: GGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattg ... acttataaagAAGAAGAAAAATAAGGATTCAAGCACCAAGAAGCAGCCGGCGAGGGAGGCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCCAAAGGCCCCCTGGTGCATTGCCGTCATCTATGCTAGGATATGAGGCACTGACTGGTTCCTTAGATGATTTTGGGTTTGAAGATTATCTTAACTgtaaggattgctgtcctttgatttcccctgaatcttattgcttgcttttcacatttctttgcaactatttgggaaccaacttttgcttatttattatatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA