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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttctctgttctgcagtgaaatataagtccataacaagatgtgattgtgtgtgttgtggaataggtatgaagataccactattccttttggcatatattgacacatatttttgtttatttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTACCCGATCTTTATCGTGAAAATATTGTATTTGTGCCAACTGCAAAACTGGA

Basic information

species Oryza sativa
transcript LOC_Os04g59040.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g59040.3 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G061928_T03 (Zea mays), 3'ss of exon 8
gtaagttctctgttctgcagtgaaatata----agtccataacaagatgtgattgtgtgtgttgtggaataggtatgaagataccactattccttttggcatatattgacacatatttttgtttatttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTACCCGATCTTTATCGTGAAAATATTGTATTTGTGCCAACTGCAAAACTGGA
|||||  ||| | |   || ||||   |     | ||| | |||| |    ||| |||   || |      | |  |  |     | | ||   | ||  |    | |  ||| ||  || || || | ||| |||||| ||||||||||| ||||| |||||||||||||||||||||| ||  | |   | ||||||  |      | | ||  |||  |  |  | || |  |
gtaag--ctcagcttgacactgaacctttcgctaatccgttacaaaagtgcattctgta-attatttctccgttcggttgtggtgattgttgagtatgtgactcttagtaacacatacttattgatctgatcgcagGGATCTGTATGCGCAGTATATTTTGCAAAGCTTGAGGCAGTAGATTGGAAGCAACTATTTATCTGGGCGTCTTGGAATGAGTGTGATTTTAATAAGTCAA

upper sequence: LOC_Os04g59040.3 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G104918_T03 (Zea mays), 3'ss of exon 8
---------------------gtaagttctctgttctgcagtgaaatataagtccataa--caagatgtgattgtgtgtgttgtggaataggtatgaagataccactattccttttggcatatattgacacatatttttgtttatttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTACC--CGATCTTTATCGTGAAAATATTGTATTTGTGC-CAACTGCAAAACTGGA
                     | |  |||     ||||     |||| |  |||| | |  |   |  || ||       || ||   |   | |  || ||     || |||| || |    | | ||||| ||  || || |||| ||| ||||||||||||||| || ||||| |||||||||||||||||||||| ||| | |  | || | | |        | ||| ||  | ||   | |  || |     
gtaagctctcggcttgacactgaaccttcgtcactctgttacaaaatttgcgtccttgattctttacttgttttccctccttttgtggtgtttgttgag-tatggaaatgccttgtgaccctcagtaacaca-atacttattgatttgatcgcagGGACCTGTATGCCCAGTATATTTTGCAAAGCTTGAGGCAGTAGATTGCAAGCAACAATTTATCTATCATGCGTCTTGGATGGGGGCGTGATTTTAATAAG---
















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|58669944|gb|CK058630.1|CK058630
EST:     GATGCATTCTGGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGCCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|88266037|gb|CI376939.1|CI376939
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|86873424|gb|CI341649.1|CI341649
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|33684219|gb|CF312458.1|CF312458
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|86527296|gb|CI167502.1|CI167502
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|88320691|gb|CI525633.1|CI525633
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|86834579|gb|CI340696.1|CI340696
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|86846050|gb|CI347237.1|CI347237
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|88384252|gb|CI551178.1|CI551178
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|33684220|gb|CF312459.1|CF312459
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCT
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCT
EST: gi|89171018|gb|CI040295.1|CI040295
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|88450730|gb|CI549816.1|CI549816
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|88291938|gb|CI532530.1|CI532530
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|88963306|gb|CI028322.1|CI028322
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|88441295|gb|CI538738.1|CI538738
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|88555507|gb|CI485770.1|CI485770
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|88965200|gb|CI009236.1|CI009236
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|86498205|gb|CI140838.1|CI140838
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|55434347|gb|CV730295.1|CV730295
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taccactattccttttggcatatattgacacatatttttgtttatttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTACCCGATCTTTATCGTGAAAATATTGTATTTGTGCCAACTGCAAAACTGGA
                                        tttattt  CT-rich tract
                   atatattgacacatat  TA-rich tract