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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAACTGGGGTGTTCCTGACAGAGATTTACGAGATTCCCTAATTCTTATGATTGCTGAAATATTGTTACCTGCTTATAGATCTTTCCTGAAACACTTTGGgtactttccaatttgctctggttttacgactttgttttatttctttatcaagctcctcaagacatttctcctttggttatgttatggttatcgttttcatcatgtag

Basic information

species Oryza sativa
transcript LOC_Os04g58870.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g58870.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA13G05040.1 (Glycine max), 5'ss of exon 10
TGAACTGGGGTGTTCCTGACAGAGATTTACGAGATTCCCTAATTCTTATGATTGCTGAAATATTGTTACCTGCTTATAGATCTTTCCTGAAACACTTTGGgtactttccaattt-gctctggttttacgactttgttttatttctttatcaagctcctcaagacatttctcctttggttatgttatggttatcgt--tttcatcatgtag
   | |||  ||| || || || || ||||| || || || |   |     |||||||| | ||||||||||| |||||||||||||| ||||  ||||||||| || || ||| ||| |   |||  |        |||    |||       | ||  | |   || |  ||| ||||| ||||  | || |   ||| | |  |   
CTCAATGGACTGTCCCAGATAGTGAATTACGTGAATCTCTTAGATTGGCTGTTGCTGAAGTCTTGTTACCTGCGTATAGATCTTTCCTTAAACGATTTGGgtacgtttcagtttcgctatatatttttggacaaaacttagaagttt-------ttcttcaaatgattttagttttgttatcttatcataattgaagttttacctcg---

upper sequence: LOC_Os04g58870.1 (Oryza sativa), 5'ss of exon 10
lower sequence: AT5G03540.1 (Arabidopsis thaliana), 5'ss of exon 11
TGAACTGGGGTGTTCCTGACAGAGATTTACGAGATTCCCTAATTCTTATGATTGCTGAAATATTGTTACCTGCTTATAGATCTTTCCTGAAACACTTTGGgtactttccaatttgctctggtt-ttacgact-ttgttttatttctttatcaagctcctcaagacatttctcctttggttatgttatggttatcgttttcatcatgtag
 | | |||   ||||| |||| ||| ||| |||| || ||||  |||    |||||||| |||| || |||||||||||||| ||||| |||| |||||||||     |   || ||||  ||  | |||    | || || |  || ||  |  |    || |   |          |||   |||| |    |              
CGCAATGGACAGTTCCAGACACAGAGTTAAGAGAGTCACTAAGACTTGCTGTTGCTGAAGTATTATTGCCTGCTTATAGATCATTCCTCAAACGCTTTGGgtaaaaatctcctttctctctttactgcgaaggcttttctaatatttgattgaaatgtaaaaaaacctaaatgagattttaacctatgatcgatgcag-----------
















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|88251305|gb|CI349733.1|CI349733
EST:     GTTGCTGAAATATTGTTACCTGCTTATAGATCTTTCCTGAAACACTTTGG                         GCCTCTTGTTGAGAACAGCCACAGCGCTTT
genomic: -TTGCTGAAATATTGTTACCTGCTTATAGATCTTTCCTGAAACACTTTGGgtactttcca ... catcatgtagGCCTCTTGTTGAGAACAGCCACAGCGCTTT
EST: gi|88261076|gb|CI364652.1|CI364652
EST:     ATTGCTGAAATATTGTTACCTGCTTATAGATCTTTCCTGAAACACTTTGG                         GCCTCTTGTTGAGAACAGCCACAGCGCTTT
genomic: ATTGCTGAAATATTGTTACCTGCTTATAGATCTTTCCTGAAACACTTTGGgtactttcca ... catcatgtagGCCTCTTGTTGAGAACAGCCACAGCGCTTT
EST: gi|286510|gb|D15317.1|D15317
EST:     ATTGCTGAAATATTGTTACCTGCTTATAGATCTTTCCTGAAACACTTTGG                         GCCTCTTGTTGAGAACAGCCACAGCG
genomic: ATTGCTGAAATATTGTTACCTGCTTATAGATCTTTCCTGAAACACTTTGGgtactttcca ... catcatgtagGCCTCTTGTTGAGAACAGCCACAGCG