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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgtcttactcttattgtcatgcttcaacaatttgggattattagtttctcaaaaacctttttatttgcagGTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATGATGGTTCTTGATACACATGGGGAAGTCTTTGTTTGGATGGGTCAGTGTG

Basic information

species Oryza sativa
transcript LOC_Os03g24220.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g24220.2 (Oryza sativa), 3'ss of exon 17
lower sequence: GRMZM2G359566_T01 (Zea mays), 3'ss of exon 2
---------------gtatgttgtcttactcttatt--gtcatgcttcaacaatttgggattattagtt-------tctcaaaaacctttttatttgcagGTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATGATGGTTCTTGATACACATGGGGAAGTCTTTGTTTGGATGGGTCAGTGTG
                | | |||  ||  ||  | |  ||  || | ||  ||| | |  || ||||         |    ||| |    || |  |||||| |||||||||||||| |||||||||||||||||| |||| |||||||||||| | |||||||||||    || || ||||| |||||||||||||| |
gctggaggtttgttgctctattgatttgatccaaattggttgtgttccagtaatcttgtttttttagaaaaaaaaatactgaaagctcacttgtacgcagGTTACTGAAATTTTCAATTTTTCACAAGATGATTTGTTGACCGAAGACATGATGATACTTGATACACACTCTGAGGTTTTTGTCTGGATGGGTCAGTGCG

upper sequence: LOC_Os03g24220.2 (Oryza sativa), 3'ss of exon 17
lower sequence: GRMZM2G081322_T01 (Zea mays), 3'ss of exon 18
--------gtatgttgtcttactcttatt--gtcatgcttcaacaatttgggattatt---agtttctcaaaaacctttttatttgcagGTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATGATGGTTCTTGATACACATGGGGAAGTCTTTGTTTGGATGGGTCAGTGTG----------------------------
         | | |||  ||  ||  | |  ||| || | ||  ||| | |  || ||   | |      ||| |    || |  |||||| |||||||||||||| ||||||||||||||| || |||| |||||||||||| | |||||||||||  | || || ||||||||||||||||||||||                            
gtttgtttctgtattgatttgatccaaattggtcttgttccagtaatcttgctttttttaaaataatctgaaagctcacttgtacgcaggttactgaaattttcaatttttcacaagATGATCTGTTGACCGAAGACATGATGATACTTGATACACACTGTGAGGTTTTTGTTTGGATGGGTCAGTGTGTGGAGACAAAAGAAAAACAGAAAGCATT
















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|88694289|gb|CI738327.1|CI738327
EST:     TGAGGAATGGGAAACTGGAG                         GTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATG
genomic: TGAGGAATGGGAAACTGGAGgtatgttgtc ... ttatttgcagGTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATG
EST: gi|58596217|gb|CK006745.1|CK006745
EST:     CTCATTGAGGAATGGGAAACTGGAG                         GTCACTGAAATTTTCAACTTTTCACAAGATGATTGGGTGACTGAAGACATG
genomic: CTCATTGAGGAATGGGAAACTGGAGgtatgttgtc ... ttatttgcagGTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATG
EST: gi|88351837|gb|CI624642.1|CI624642
EST:     CTCATTGAGGAATGGGAAACTGGAG                         GTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATG
genomic: CTCATTGAGGAATGGGAAACTGGAGgtatgttgtc ... ttatttgcagGTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATG
EST: gi|25798468|gb|CA754429.1|CA754429
EST:     CTCATTGAGGAATGGGAAACTGGAG                         GTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATG
genomic: CTCATTGAGGAATGGGAAACTGGAGgtatgttgtc ... ttatttgcagGTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATG
EST: gi|396941448|gb|HO188657.1|HO188657
EST:     CTCATTGAGGAATGGGAAACTGGAG                         GTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATG
genomic: CTCATTGAGGAATGGGAAACTGGAGgtatgttgtc ... ttatttgcagGTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATG
EST: gi|88722817|gb|CI746327.1|CI746327
EST:     CTCATTGAGGAATGGGAAACTGGAG                         GTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTG
genomic: CTCATTGAGGAATGGGAAACTGGAGgtatgttgtc ... ttatttgcagGTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTG
EST: gi|33674859|gb|CF303098.1|CF303098
EST:     CTCATTGAGGAATGGGAAACTGGAG                         GTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATG
genomic: CTCATTGAGGAATGGGAAACTGGAGgtatgttgtc ... ttatttgcagGTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATG
EST: gi|58674368|gb|CK063054.1|CK063054
EST:     CTCATTGAGGAATGGGAAACTGGAG                         GTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATG
genomic: CTCATTGAGGAATGGGAAACTGGAGgtatgttgtc ... ttatttgcagGTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATG
EST: gi|58610643|gb|CK038355.1|CK038355
EST:     CTCATTGAGGAATGGGAAACTGGAG                         GTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATG
genomic: CTCATTGAGGAATGGGAAACTGGAGgtatgttgtc ... ttatttgcagGTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATG
EST: gi|58672994|gb|CK061680.1|CK061680
EST:     CTCATTGAGGAATGGGAAACTGGAG                         GTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATG
genomic: CTCATTGAGGAATGGGAAACTGGAGgtatgttgtc ... ttatttgcagGTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcatgcttcaacaatttgggattattagtttctcaaaaacctttttatttgcagGTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATGATGGTTCTTGATACACATGGGGAAGTCTTTGTTTGGATGGGTCAGTGTG
                                        cctttttattt  CT-rich tract
                                   aaaaacctttttattt  TA-rich tract