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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAGgtagaaagaatcaattttctctttaataccacagcagctttagaatgctatttaaacaaatgcaactttttctatacacag

Basic information

species Oryza sativa
transcript LOC_Os05g07070.8
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g07070.8 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G118344_T02 (Zea mays), 5'ss of exon 6
CGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAGgtagaaagaatcaa---------ttttctctttaataccacag-cagctttagaatgctattta-aacaaatgcaacttttt------ctatacacag
|| |||||||||||  |||||||| ||||||||||||| |||||||  |  || ||||||||||||||||| |||||||||||||| ||||| |||||||||| |||| |  |          |   |  ||| || ||||  |      || |||   | |  ||| |||| || ||| |       |||   |||
CGTTTTATGATGCTAAATCAGTTATTTATCCATGAATCGAGAGAAGATTCTGACCCTCACTGGGACATGAGGCTGGACATTGATGATATGAGTTATGAGgtagtaagattgtaagaaagaacctagataattagtatcacaaaccaacacaggatgtgttctgtaactaatgtaagtttctatgctgttatctgcag

upper sequence: LOC_Os05g07070.8 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv13s0019g04100.t01 (Vitis vinifera), 5'ss of exon 5
-CGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAGgtagaaagaatcaattt--tctctttaataccacagcagct--ttagaatgctatttaaacaaatgcaactttttctatacacag
 | ||  || ||| ||||    | |    |  |||  || ||| |    || ||||   |  |||||||||| |||||||||||||||||||| ||||||||    |   |||  ||  || ||||| | |||       |  ||  |   |  |||||    |    |||   | |     |||
GCTGTC-ATAATGGTGGACAGCTCATCCTTGTATGGTTCCAGAAATTTGTTTGATCAGTATGGGGACATGAGGCTGGACATTGATGACATGAGTTATGAGgttactatgttcacattgatccctttacttccattcttattgtttctagctccctttaattttaaagtactgcatttg-gggcag
















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|33678771|gb|CF307010.1|CF307010
EST:     TCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAG                         GAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
genomic: TCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAGgtagaaagaa ... ctatacacagGAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
EST: gi|86890276|gb|CI321453.1|CI321453
EST:     GATCCTCACT-GGACATGAGACTGGACATTGATGACATGAGCTATGAG                         GAGCTGCTGCCTTTGGAAGAACCCATA-GCCATGTGAACACTGGCCTCGCT
genomic: GATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAGgtagaaagaa ... ctatacacagGAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
EST: gi|109712957|gb|CI105565.1|CI105565
EST:     TCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAG                         GAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCC
genomic: TCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAGgtagaaagaa ... ctatacacagGAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
EST: gi|89174305|gb|CI110503.1|CI110503
EST:     ATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAG                         GAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
genomic: ATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAGgtagaaagaa ... ctatacacagGAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
EST: gi|88964798|gb|CI084796.1|CI084796
EST:     TCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAG                         GAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
genomic: TCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAGgtagaaagaa ... ctatacacagGAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
EST: gi|29633286|gb|CB638295.1|CB638295
EST:     TCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAG                         GAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
genomic: TCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAGgtagaaagaa ... ctatacacagGAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
EST: gi|218502858|gb|FG946692.1|FG946692
EST:     TCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAG                         GAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
genomic: TCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAGgtagaaagaa ... ctatacacagGAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
EST: gi|88243449|gb|CI244571.1|CI244571
EST:     GGACATGAGACTGGACATTGATGACATGAGCTATGAG                         GAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
genomic: GGACATGAGACTGGACATTGATGACATGAGCTATGAGgtagaaagaa ... ctatacacagGAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
EST: gi|29646727|gb|CB651734.1|CB651734
EST:     TCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAG                         GAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
genomic: TCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAGgtagaaagaa ... ctatacacagGAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
EST: gi|14981531|gb|BI306209.1|BI306209
EST:     TCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAG                         GAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
genomic: TCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAGgtagaaagaa ... ctatacacagGAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
EST: gi|86490334|gb|CI132967.1|CI132967
EST:     TCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAG                         GAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
genomic: TCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAGgtagaaagaa ... ctatacacagGAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
EST: gi|88982886|gb|CI250490.1|CI250490
EST:     GATGACATGAGCTATGAG                         GAGCTTCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
genomic: GATGACATGAGCTATGAGgtagaaagaa ... ctatacacagGAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
EST: gi|86487200|gb|CI129833.1|CI129833
EST:     CACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAG                         GAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT
genomic: CACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAGgtagaaagaa ... ctatacacagGAGCTGCTGGCTTTGGAAGAACGCATAGGCCATGTGAACACTGGCCTCGCT