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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgaacactcaccaatatttctttttttttccctcagtgtgtagttatgatggttaagataaaaggcactgcttgtacaattttgtgctaagtgatgactctcttaatgtttagCTGACAGGCTTATCAAAGAATTCCATCACTTTGAAGTGGGAAAGTGATAGTTGTTCTTCTGTTGAAATTTCTGGGCTTGATGTCGGGTGGGGACAG

Basic information

species Oryza sativa
transcript LOC_Os03g01750.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g01750.5 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G052546_T07 (Zea mays), 3'ss of exon 10
gtaagtgaacactcaccaatatttctttttttttccctcagtgtgtagttatgatggttaagataaa----aggcactgcttgtacaa---ttttgtgctaagtgatgactctcttaatgtttagCTGACAGGCTTATCAAAGAATTCCATCACTTTGAAGTGGGAAAGTGATAGTTGTTCTTCTGTTGAAATTTCTGGGCTTGATGTCGGGTGGGGACAG
|||||||||  |  | | | ||||||            ||||  ||||||||| |||  ||||| ||       ||  ||  ||  ||   |||  | |||||||||| || || || | ||||||||||||| ||||| || ||  | ||||||||||||||||||  |||| ||| ||| |||||||||||||||||||| ||  | || ||||| |||
gtaagtgaatgcagaacta-atttct------------cagta-gtagttatgttggagaagatgaatacagatcatggcgagtcaaagattttcctactaagtgatggctgtcgtattatttagCTGACAGGATTATCCAAAAACACAATCACTTTGAAGTGGGAAGCTGATGGTTCTTCCTCTGTTGAAATTTCTGGGCTCGACATTGGCTGGGGTCAG
















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|58688312|gb|CK076999.1|CK076999
EST:     GAGCTTGCTTTCCAAAGTTGGAAGCCATTAAATTGGCTACTGCTGACATT                         CTGACAGGCTTATCAAAGAATTCCATCACTTTGAAGTGGGAAAGTGATAGT
genomic: GAGCTTGCTTTCCAAAGTTGGAAGCCATTAAATTGGCTACTGCTGACATTgtaagtgaac ... taatgtttagCTGACAGGCTTATCAAAGAATTCCATCACTTTGAAGTGGGAAAGTGATAGT
EST: gi|2428616|gb|C73079.1|C73079
EST:     GAGCTTGCTTTCCAAAGTTGGAAGCCATTAAATTGGCTACTGCTGACATT                         CTGACAGGCTTATCAAAGAATTCCATCACTTTGAAGTGGGAAAGTGATAGT
genomic: GAGCTTGCTTTCCAAAGTTGGAAGCCATTAAATTGGCTACTGCTGACATTgtaagtgaac ... taatgtttagCTGACAGGCTTATCAAAGAATTCCATCACTTTGAAGTGGGAAAGTGATAGT
EST: gi|25806922|gb|CA762883.1|CA762883
EST:     GAGCTTGCTTTCCAAAGTTGGAAGCCATTAAATTGGCTACTGCTGACATT                         CTGACAGGCTTATCAAAGAATTCCATCACT
genomic: GAGCTTGCTTTCCAAAGTTGGAAGCCATTAAATTGGCTACTGCTGACATTgtaagtgaac ... taatgtttagCTGACAGGCTTATCAAAGAATTCCATCACT
EST: gi|55828006|gb|AU065392.2|AU065392
EST:     GAGCTTGCTTTCCAAAGTTGGAAGCCATTAAATTGGCTACTGCTGACATT                         CTGACAGGCTTATCAAAGAATTCCATCACTTTGAAGTGGG
genomic: GAGCTTGCTTTCCAAAGTTGGAAGCCATTAAATTGGCTACTGCTGACATTgtaagtgaac ... taatgtttagCTGACAGGCTTATCAAAGAATTCCATCACTTTGAAGTGGG
EST: gi|428438|gb|D24587.1|D24587
EST:     GAGCTTGCTTTCCAAAGTTGGAAGCCATTAAATTGGCTACTGCTGACATT                         CTGACAGGCTTATCAAAGAATTCCATCACTTTGA
genomic: GAGCTTGCTTTCCAAAGTTGGAAGCCATTAAATTGGCTACTGCTGACATTgtaagtgaac ... taatgtttagCTGACAGGCTTATCAAAGAATTCCATCACTTTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaaaggcactgcttgtacaattttgtgctaagtgatgactctcttaatgtttagCTGACAGGCTTATCAAAGAATTCCATCACTTTGAAGTGGGAAAGTGATAGTTGTTCTTCTGTTGAAATTTCTGGGCTTGATGTCGGGTGGGGACAG
                                          tcttaat  putative branch site (score: 3)
                                       ctctctt  CT-rich tract
                                            ttaatgttta  TA-rich tract