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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatgtgattgccaccgatgcgcgctcatgtggttgattagttccgctcatcgtgatttttgcatttacctagtcgtgctgttgcctcctctccagaagGATATGCAGAAACCTATGCAGACACCGCCGCCCCATTTCCCCATGTCAGGGGGATACATGAGCCCAGGGACGCCGCCATCCATGTACCTCGGGGGTGGTG

Basic information

species Oryza sativa
transcript LOC_Os08g41010.4
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g41010.4 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G134770_T03 (Zea mays), 3'ss of exon 3
--------------------------gtacatgtgattgcc--accgatgcgcgctca-tgtggttg--attagttccgctcatcg--tgatt-tttgcatttacctagtcgtgctgttgcctcctctccagaagGATATGCAGAAACCTATGCAGACACCGCCGCCCCATTTCCCCATGTCAGGGGGATACATGAGCCCAGGGACGCCGCCATCCATGTACCTCGGGGGTGGTG------------
                           | ||  |  ||| |   | | |  ||||  | |||   ||   ||| ||| |||  | |  ||    ||||||||||||| ||  |||| |||| | || | |||||||  |||||||               | ||||| |  |  ||||  ||||| || |||||||||||||||||||| || || |||||||| || |||||||            
gtacatgatggtttcacctcgctttactgcagattgttggcttgctgctttgcgcatagtgtacctgtggttacttctgcttgttgcttgcccgtttgcatttacctggtgctgctattgctttctgttcagAAGGCCATGCAGA---------------CCCCGCCTCGCTATCCCACATCAGGAGGTTACATGAGCCCAGGGACGCCACCGTCGATGTACCTTGGTGGTGGTGCTCCCCCATATG

upper sequence: LOC_Os08g41010.4 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G134770_T04 (Zea mays), 3'ss of exon 3
--------------------------gtacatgtgattgcc--accgatgcgcgctca-tgtggttg--attagttccgctcatcg--tgatt-tttgcatttacctagtcgtgctgttgcctcctctccagaagGATATGCAGAAACCTATGCAGACACCGCCGCCCCATTTCCCCATGTCAGGGGGATACATGAGCCCAGGGACGCCGCCATCCATGTACCTCGGGGGTGGTG---------------
                           | ||  |  ||| |   | | |  ||||  | |||   ||   ||| ||| |||  | |  ||    ||||||||||||| ||  |||| |||| | || | |||||||  |||||||               | ||||| |  |  ||||  ||||| || |||||||||||||||||||| || || |||||||| || |||||||               
gtacatgatggtttcacctcgctttactgcagattgttggcttgctgctttgcgcatagtgtacctgtggttacttctgcttgttgcttgcccgtttgcatttacctggtgctgctattgctttctgttcagaagGCCATGCAGA---------------CCCCGCCTCGCTATCCCACATCAGGAGGTTACATGAGCCCAGGGACGCCACCGTCGATGTACCTTGGTGGTGGTGCTCCCCCATATGGCT
















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|58588238|gb|CF986546.1|CF986546
EST:     CCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACG                         GATATGCAGAAACCTATGCAGACACCGCCGCCCCATTTCCCCATGTCAGGG
genomic: CCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACGgtacatgtga ... tctccagaagGATATGCAGAAACCTATGCAGACACCGCCGCCCCATTTCCCCATGTCAGGG
EST: gi|88358394|gb|CI606903.1|CI606903
EST:     CCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACG                         GATATGCAGAAACCTATGCAGACACCGCCGCCCCATTTCCCCATGTCAGGG
genomic: CCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACGgtacatgtga ... tctccagaagGATATGCAGAAACCTATGCAGACACCGCCGCCCCATTTCCCCATGTCAGGG
EST: gi|58673635|gb|CK062321.1|CK062321
EST:     CCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACG                         GATATGCAGAAACCTATGCAGACACCGCCGCCCCATTTCCCCATGTCAGGG
genomic: CCACCTGCAACATGCGCAATTGCAACCAATCCAGGCCCACCGACTATACGgtacatgtga ... tctccagaagGATATGCAGAAACCTATGCAGACACCGCCGCCCCATTTCCCCATGTCAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgctcatcgtgatttttgcatttacctagtcgtgctgttgcctcctctccagaagGATATGCAGAAACCTATGCAGACACCGCCGCCCCATTTCCCCATGTCAGGGGGATACATGAGCCCAGGGACGCCGCCATCCATGTACCTCGGGGGTGGTG
                                  ctgttgcctcctctcc  CT-rich tract
         tgattttt  TA-rich tract