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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGGAACTTAAACTCGGTGTGGGAGGAACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaactattccatgttctattggtgtagtgaacatcttttaaccagttcttgataccagggaagttctgagataccgtgtgctgatccttttcatgatttttctatctgtacag

Basic information

species Oryza sativa
transcript LOC_Os02g43500.1
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|29661124|gb|CB657399.1|CB657399
EST:     ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAG                         TCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
genomic: ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
EST: gi|218495170|gb|FG957512.1|FG957512
EST:     ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAG                         TCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
genomic: ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
EST: gi|29619334|gb|CB624346.1|CB624346
EST:     ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAG                         TCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
genomic: ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
EST: gi|58608739|gb|CK036772.1|CK036772
EST:     ACATCTTATGCGGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAG                         TCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
genomic: ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
EST: gi|88468873|gb|CI696875.1|CI696875
EST:     ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAG                         TCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
genomic: ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
EST: gi|29684684|gb|CB680959.1|CB680959
EST:     ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAG                         TCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
genomic: ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
EST: gi|218483643|gb|FG955539.1|FG955539
EST:     ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAG                         TCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
genomic: ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
EST: gi|218480294|gb|FG954453.1|FG954453
EST:     ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAG                         TCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
genomic: ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
EST: gi|29643098|gb|CB648105.1|CB648105
EST:     ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAG                         TCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
genomic: ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
EST: gi|218491083|gb|FG953112.1|FG953112
EST:     ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAG                         TCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
genomic: ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
EST: gi|29660129|gb|CB656404.1|CB656404
EST:     ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAG                         TCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
genomic: ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
EST: gi|29661191|gb|CB657466.1|CB657466
EST:     ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAG                         TCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
genomic: ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
EST: gi|29660498|gb|CB656773.1|CB656773
EST:     ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAG                         TCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
genomic: ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
EST: gi|29660247|gb|CB656522.1|CB656522
EST:     ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAG                         TCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
genomic: ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
EST: gi|38480918|gb|CF965007.1|CF965007
EST:     ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAG                         TCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
genomic: ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
EST: gi|29667086|gb|CB663361.1|CB663361
EST:     ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAG                         TCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
genomic: ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
EST: gi|29687907|gb|CB684182.1|CB684182
EST:     ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAG                         TCAGGTAGATCCTATTGTGGCATCGTTTTCAGGTGGAGCAGTTGGAGTTAT
genomic: ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
EST: gi|29684442|gb|CB680717.1|CB680717
EST:     ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAG                         TCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT
genomic: ACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTAT

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 73 (upstream exon), 74 (downstream exon)
Score: 172

CTGGAACTTAAACTCGGTGTGGGAGGAACATCTTATGCAGACTTCATCCGCAGTGTCCATTTGCCGATGCAACTGAGgtattacaac ... atctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTATCTCCGCTCTAATGGTTGTTGAGATCAACAATGTCAAACAGCAGGAGCAT




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