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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATCTCATGCTTTCCACAGACGATCAGATTCCACATATTGGACCTGAAGTTCACCACAGGAACCGTGGAGTGCAACAAATGCTCTACCCAAACCCTCCAgtatgtttatttttgttcttttttttatggtgaatttctcattttttctgaatacatttttttttctcag

Basic information

species Oryza sativa
transcript LOC_Os01g35580.1
intron # 4
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|4968784|gb|AU065688.1|AU065688
EST:     TTCACCACAGGAACCGTGGAGTGCAACAAATGCTCTACC-AAACCCTCCA                         TNCCCGATCGATCCTGATTATGAGTT
genomic: TTCACCACAGGAACCGTGGAGTGCAACAAATGCTCTACCCAAACCCTCCAgtatgtttat ... tttttctcagTTCCCGATCGATCCTGATTATGAGTT
EST: gi|88993394|gb|CI257822.1|CI257822
EST:     TTCACCACAGGAACCGTGGAGTGCAACAAGTGCTCTACCCAAACCCTCCA                         TTCCCGATCGATCCTGATTATGAGTTTGGTACTCCGCAACAACGAGTCCCA
genomic: TTCACCACAGGAACCGTGGAGTGCAACAAATGCTCTACCCAAACCCTCCAgtatgtttat ... tttttctcagTTCCCGATCGATCCTGATTATGAGTTTGGTACTCCGCAACAACGAGTCCCA
EST: gi|286516|gb|D15323.1|D15323
EST:     TTCACCACAGGAACCGTGGAGTGCAACAAATGCTCTACCCAAACCCTCCA                         TTCCCGATCGATCCTGATTATGAGTTTGGTACTCCGCAANAACGAGTCCCA
genomic: TTCACCACAGGAACCGTGGAGTGCAACAAATGCTCTACCCAAACCCTCCAgtatgtttat ... tttttctcagTTCCCGATCGATCCTGATTATGAGTTTGGTACTCCGCAACAACGAGTCCCA
EST: gi|58681060|gb|CK069747.1|CK069747
EST:     TTCACCACAGGAACCGTGGAGTGCAACAAATGCTCTACCCAAACCCTCCA                         TTCCCGATCGATCCTGATTATGAGTTTGGTACTCCGCAACAACGAGTCCCA
genomic: TTCACCACAGGAACCGTGGAGTGCAACAAATGCTCTACCCAAACCCTCCAgtatgtttat ... tttttctcagTTCCCGATCGATCCTGATTATGAGTTTGGTACTCCGCAACAACGAGTCCCA

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGATCTCATGCTTTCCACAGACGATCAGATTCCACATATTGGACCTGAAGTTCACCACAGGAACCGTGGAGTGCAACAAATGCTCTACCCAAACCCTCCAgtatgtttatttttgttcttttttttatggtgaatttctcattttttctgaatacatttttttttctcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG