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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactccatgtgaattttagatcttctttgaatttacttaaatgcatagatatcgattgtgtttgtagaaaacatgccagtttccctgttaccaatgaaaaattcaaacatgttacagGAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTTGGTACTGTTTACCTCGGTGACAAGAATGTTGCCTACTCGATAATTGCTG

Basic information

species Oryza sativa
transcript LOC_Os02g32350.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g32350.2 (Oryza sativa), 3'ss of exon 3
lower sequence: AC207890.3_FGT002 (Zea mays), 3'ss of exon 2
gtactccatgtgaattttagatcttctttgaatttacttaaatgcatagatatcgattgtgtttgtagaaaacatgccagtttccctgttaccaatgaaaaattcaaacatg---ttacagGAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTTGGTACTGTTTACCTCGGTGACAAGAATGTTGCCTACTCGATAATTGCTG
|| || ||| |||| || | ||||||| | || |  | ||           ||  ||||| ||  |                |   | |   ||||| ||||||  ||  ||   |||||||||||||||||||||||||| || || ||||| ||| ||||||||||||| || |||||||| || ||||||||||||||||| |||||  ||||| |||
gtgctacatttgaacttcatatcttctctaaactctcgtat---------cattcattgtattctt--------------cctttttttggacaatgcaaaattataatctgctgttacagGAGGTCACATTCAGAGTGGATTATACGGCTCCTAATATTGGACGAGAATTCGGAACTGTTTATCTAGGTGACAAGAATGTTGCGTACTCAGTAATTTCTG

upper sequence: LOC_Os02g32350.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G136296_T02 (Zea mays), 3'ss of exon 3
gtactccatgtgaattttagatcttctttgaatttacttaaatgcatagatatcgattgtgtttgtagaaaacatgccagtttccctgttaccaatgaaaaattcaaa---catgtta-cagGAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTTGGTACTGTTTACCTCGGTGACAAGAATGTTGCCTACTCGATAATTGCTG
|| || ||| |||| || | |||||||  ||  |  || | ||        ||  ||||| ||                 |||   | ||  || || ||||||  ||   | ||||| |||||||||||||||| |||||| || |||||||| ||| |||||||||||||||| |||||||  ||  |||| ||||||||||| |||||  || || |||
gtgctacatttgaacttcatatcttctccgagct--ctcatat-------cattcattgtattc----------------ttttttttttgacactgcaaaattataatctcctgttaacagGAGGTCACATTCAAAGTGGATTATACAGCTCCTAATATTGGACGAGAATTTGGAACTGTTTTTCTATGTGATAAGAATGTTGCATACTCAGTAGTTTCTG
















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|88328058|gb|CI649856.1|CI649856
EST:     CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAG                         GAGGTCANATTC
genomic: CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAGgtactccatg ... catgttacagGAGGTCACATTC
EST: gi|29687922|gb|CB684197.1|CB684197
EST:     CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAG                         GAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
genomic: CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAGgtactccatg ... catgttacagGAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
EST: gi|29631511|gb|CB636520.1|CB636520
EST:     CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAG                         GAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
genomic: CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAGgtactccatg ... catgttacagGAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
EST: gi|29622580|gb|CB627591.1|CB627591
EST:     CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAG                         GAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
genomic: CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAGgtactccatg ... catgttacagGAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
EST: gi|29636331|gb|CB641340.1|CB641340
EST:     CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAG                         GAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
genomic: CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAGgtactccatg ... catgttacagGAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
EST: gi|88367108|gb|CI563872.1|CI563872
EST:     CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAG                         GAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
genomic: CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAGgtactccatg ... catgttacagGAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
EST: gi|88361419|gb|CI605200.1|CI605200
EST:     CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAGAG                         GAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
genomic: CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAGgtactccatg ... catgttacagGAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
EST: gi|6012905|gb|AU078722.1|AU078722
EST:     ATTTGCTTGGGAAAGCAGGGGAGTTTCTAAGGAAACTCTGCATAGGAAAG                         GAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
genomic: ATTTGCTTGGGAAAGCAGGG-AGTTTCTAAGGAAACTCTGCATAGGAAAGgtactccatg ... catgttacagGAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
EST: gi|29627292|gb|CB632303.1|CB632303
EST:     CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAG                         GAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
genomic: CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAGgtactccatg ... catgttacagGAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
EST: gi|117240306|gb|CT842733.1|CT842733
EST:     CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAG                         GAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
genomic: CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAGgtactccatg ... catgttacagGAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
EST: gi|58680371|gb|CK069058.1|CK069058
EST:     CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAG                         GAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT
genomic: CATTTGCTTGGGAAAGCAGGGAGTTTCTAAGGAAACTCTGCATAGGAAAGgtactccatg ... catgttacagGAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtagaaaacatgccagtttccctgttaccaatgaaaaattcaaacatgttacagGAGGTCACATTCAGAGTGGACTACACAGCTCCAAATGTTGGACGAGAATTTGGTACTGTTTACCTCGGTGACAAGAATGTTGCCTACTCGATAATTGCTG
                              aatgaaaaattcaaa  TA-rich tract