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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTAGTGTCCCTGAAGGAAAGAAGAGGGACAGGAGAAATGACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGgtactatatgcttttttcatgaatactatctactattgttgttgtagtaggaggcttcaagggctaatgtgggctgtttgtatcagaccaaaag

Basic information

species Oryza sativa
transcript LOC_Os11g01890.2
intron # 5
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|33653426|gb|CF276040.1|CF276040
EST:     ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGACCAAAAG                  
genomic: ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATT-----GA-C--AAGgtactatatg ... aga
EST: gi|88852689|gb|CI008882.1|CI008882
EST:     ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGACCAAAAG                  
genomic: ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATT-----GA-C--AAGgtactatatg ... aga
EST: gi|88224094|gb|CI223943.1|CI223943
EST:     ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGACCAAAAG                  
genomic: ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATT-----GA-C--AAGgtactatatg ... aga
EST: gi|86436668|gb|CI118390.1|CI118390
EST:     ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGACCTAAAG                  
genomic: ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATT-----GA-C--AAGgtactatatg ... aga
EST: gi|29662875|gb|CB659150.1|CB659150
EST:     ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAG                         A
genomic: ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGgtactatatg ... agaccaaaag-
EST: gi|29662875|gb|CB659150.1|CB659150
EST:     ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAG                         A
genomic: ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGgtactatatg ... agaccaaaag-
EST: gi|29662875|gb|CB659150.1|CB659150
EST:     ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAG                         A
genomic: ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGgtactatatg ... agaccaaaag-
EST: gi|29662875|gb|CB659150.1|CB659150
EST:     ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAG                         A
genomic: ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGgtactatatg ... agaccaaaag-
EST: gi|29662875|gb|CB659150.1|CB659150
EST:     ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAG                         A
genomic: ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGgtactatatg ... agaccaaaag-
EST: gi|29662875|gb|CB659150.1|CB659150
EST:     ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAG                         A
genomic: ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGgtactatatg ... agaccaaaag-
EST: gi|29662875|gb|CB659150.1|CB659150
EST:     ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAG                         A
genomic: ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGgtactatatg ... agaccaaaag-
EST: gi|29662875|gb|CB659150.1|CB659150
EST:     ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAG                         A
genomic: ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGgtactatatg ... agaccaaaag-
EST: gi|58603685|gb|CK014213.1|CK014213
EST:     ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGACCAAAAG                  
genomic: ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATT-----GA-C--AAGgtactatatg ... aga
EST: gi|88218129|gb|CI217978.1|CI217978
EST:     ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGACCAAAAG                  
genomic: ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATT-----GA-C--AAGgtactatatg ... aga
EST: gi|86542640|gb|CI182846.1|CI182846
EST:     ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAG                         GGATGATGCGACCACTGTGATCCAAAGAGAGGAGTGGGCAAAGTCGAGGCA
genomic: ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGgtactatatg ... agaccaaaagGGATGATGCGACCACTGTGATCCAAAGAGAGGAGTGGGCAAAGTCGAGGCA
EST: gi|86539535|gb|CI179741.1|CI179741
EST:     ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGACCAAAAG                  
genomic: ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATT-----GA-C--AAGgtactatatg ... aga
EST: gi|88221121|gb|CI221077.1|CI221077
EST:     CTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGACCAAAAG                  
genomic: CTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATT-----GA-C--AAGgtactatatg ... aga
EST: gi|86839053|gb|CI330414.1|CI330414
EST:     ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGACCAAAAG                  
genomic: ACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATT-----GA-C--AAGgtactatatg ... aga

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTAGTGTCCCTGAAGGAAAGAAGAGGGACAGGAGAAATGACTTGCTACTCATACGAGATGGAGGGGAATCATTCAGAATAATTGACAAGgtactatatgcttttttcatgaatactatctactattgttgttgtagtaggaggcttcaagggctaatgtgggctgtttgtatcagaccaaaag

- - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG