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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttctcccctttttctttcaggaaatgataatttatgtattctgttttggtgatttgttgttgtttctcctattgaactccttttatttttgtagGACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTGAGGACAACTACCTTGATTTAACTCTGAGTCTAAAGCCAAGTTTTCCTGG

Basic information

species Oryza sativa
transcript LOC_Os03g63020.4
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g63020.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G045241_T07 (Zea mays), 3'ss of exon 9
gtgagtttctcccctttttctttcaggaaatgataatttatgtattctgttttggtgatttgttgttgtttctcctattgaactccttttatttttgtagGACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTGAGGACAACTACCTTGATTTAACTCTGAGTCTAAAGCCAAGTTTTCCTGG
||||||  ||    |||||  |  | |  ||| | ||  |  |||  |   ||   ||    |  |  |||  |  | |    |  | | | |||   || | |  | ||||| |||||||||||||||||||||||  | ||||||||||| ||      ||||||||||||||| ||||| |||||||||||| ||||
gtgagtcacttt--ttttttatcaaagctatggtcatg-acatatcttaactttaagaca-ataataatttaactgaatccttttgtatgactttaacagAAGCTGAACCAAGATTGGAACTGAACCTGTGGGATTTCAGCACAGAACCTGATGATTGTGTCCTTGATTTAACTCTCAGTCTGAAGCCAAGTTTTTCTGG
















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|29613120|gb|CB618133.1|CB618133
EST:     CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTA                         GACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
genomic: CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTAgtgagtttct ... atttttgtagGACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
EST: gi|29644979|gb|CB649986.1|CB649986
EST:     CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTA                         GACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
genomic: CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTAgtgagtttct ... atttttgtagGACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
EST: gi|29663527|gb|CB659802.1|CB659802
EST:     CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTA                         GACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
genomic: CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTAgtgagtttct ... atttttgtagGACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
EST: gi|34996388|gb|CF569133.1|CF569133
EST:     CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTA                         GACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
genomic: CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTAgtgagtttct ... atttttgtagGACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
EST: gi|29666009|gb|CB662284.1|CB662284
EST:     CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTA                         GACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
genomic: CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTAgtgagtttct ... atttttgtagGACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
EST: gi|29666008|gb|CB662283.1|CB662283
EST:     CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTA                         GACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
genomic: CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTAgtgagtttct ... atttttgtagGACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
EST: gi|29638287|gb|CB643296.1|CB643296
EST:     CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTA                         GACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
genomic: CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTAgtgagtttct ... atttttgtagGACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
EST: gi|29656192|gb|CB652467.1|CB652467
EST:     CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTA                         GACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
genomic: CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTAgtgagtttct ... atttttgtagGACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
EST: gi|29613155|gb|CB618168.1|CB618168
EST:     CACACAAAGACAATTGAAACTA                         GACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
genomic: CACACAAAGACAATTGAAACTAgtgagtttct ... atttttgtagGACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
EST: gi|33381337|gb|CF196680.1|CF196680
EST:     CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTA                         GACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
genomic: CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTAgtgagtttct ... atttttgtagGACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
EST: gi|218497584|gb|FG955131.1|FG955131
EST:     CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTA                         GACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
genomic: CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTAgtgagtttct ... atttttgtagGACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
EST: gi|29613395|gb|CB618408.1|CB618408
EST:     CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTA                         GACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
genomic: CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTAgtgagtttct ... atttttgtagGACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
EST: gi|29628841|gb|CB633852.1|CB633852
EST:     CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTA                         GACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG
genomic: CTGGGTACCAAGGCCACTCCATGCCTCTCACACAAAGACAATTGAAACTAgtgagtttct ... atttttgtagGACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgttttggtgatttgttgttgtttctcctattgaactccttttatttttgtagGACCGAATCCAAGGTTGGAACTGAACCTGTGGGATTTTGGTACAGAACCTGAGGACAACTACCTTGATTTAACTCTGAGTCTAAAGCCAAGTTTTCCTGG
                                     ctccttttatttttgt  CT-rich tract
                                         ttttatttttgta  TA-rich tract