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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATCCTCTTGATTTGCTCCCTCCAAGCAAAATGATCCTTGATGAGTGGAAGAGGTTATACTCAAACACAAAAACAAACTTCCGTGAGGTTGCTATCAAGGgtaagtttcttttttggaatctactagtcagtaaaaagtttccagatagacaaatttattgcattgctttgttgcaaaggatatgaatacaaattaggat...

Basic information

species Oryza sativa
transcript LOC_Os02g12800.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g12800.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G134582_T01 (Zea mays), 5'ss of exon 7
AATCCTCTTGATTTGCTCCCTCCAAGCAAAATGATCCTTGATGAGTGGAAGAGGTTATACTCAAACACAAAAACAAACTTCCGTGAGGTTGCTATCAAGGgtaagtttcttttttggaatctactagtcagtaaaaagtttccagatagacaaatttattgcattgctttgttgcaaaggatatgaatacaaattaggat-----
|| |||||||||||||| ||||| ||||| ||||| |||||||| ||||||||| | ||||| ||||| ||||| |||||||||||||||||||| || |||| ||||  || |||  |  | |  ||       || |||    | |   |   |  || ||| | |||  |    |  ||    | |  |  ||  |      
AACCCTCTTGATTTGCTTCCTCCTAGCAAGATGATTCTTGATGATTGGAAGAGGCTGTACTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgtttgcttgttgttaaattcctgttg-----aatttttttaacaatgattatggttacatagttttaataatgattatggctacatgagatattactaact

upper sequence: LOC_Os02g12800.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G029559_T02 (Zea mays), 5'ss of exon 7
AATCCTCTTGATTTGCTCCCTCCAAGCAAAATGATCCTTGATGAGTGGAAGAGGTTATACTCAAACACAAAAACAAACTTCCGTGAGGTTGCTATCAAGGgtaagtttcttttttggaatctactagtcagtaaaaagtttccagatagacaaatttattgcattg-------ctttg-ttgcaaaggatatgaatacaaattaggat-
||||| ||||||||||| ||||| |||||  |||| ||||| || ||||||||| | || || ||||| ||||| |||||||||||||||||||| || |||| |||     |||   |   |||| |   || | |||||  | |  ||    ||||| |  ||         | || || || | |||||   ||| |||||| |  
AATCCCCTTGATTTGCTTCCTCCGAGCAAGTTGATTCTTGACGATTGGAAGAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgtt-----tttaacaatgacta-tggttacatagttttaacaatgatttttttatagttttaacaataattatgcttacataagatat---tactaattagaaag

upper sequence: LOC_Os02g12800.1 (Oryza sativa), 5'ss of exon 7
lower sequence: AT1G09640.1 (Arabidopsis thaliana), 5'ss of exon 7
AATCCTCTTGATTTGCTCCCTCCAAGCAAAATGATCCTTGATGAGTGGAAGAGGTTATACTCAAACACAAAAACAAACTTCCGTGAGGTTGCTATCAAGGgtaagt---------ttcttttttggaatctactagtc-----agtaaaaagtt-tccagatagacaaatttattgcattgctttgttgcaaaggatatgaatacaaattaggat
|| |||||||| ||||| || ||||||   ||| | || ||||| ||||||||| | ||||||||||| ||| | |||||||| ||||||||||| || |||  ||         ||| | |    | | |   ||       |  |   | || |  || ||    |||  ||||  ||   |  |  | ||   | ||  | |||||   |  
AACCCTCTTGACTTGCTACCACCAAGCCCTATGGTTCTAGATGATTGGAAGAGGCTTTACTCAAACACCAAATCTAACTTCCGCGAGGTTGCTATTAAAGgtgtgtggtgatatcttcctctacctagtttttcagctttgctatcagggaattatttagctattggaatcaattgttttttatcatgtctaatattgtggct-caaatgcag--

upper sequence: LOC_Os02g12800.1 (Oryza sativa), 5'ss of exon 7
lower sequence: AT1G57720.1 (Arabidopsis thaliana), 5'ss of exon 7
AATCCTCTTGATTTGCTCCCTCCAAGCAAAATGATCCTTGATGAGTGGAAGAGGTTATACTCAAACACAAAAACAAACTTCCGTGAGGTTGCTATCAAGGgtaagtttcttttttggaatctactagtcagtaaaaagtttccagatagacaaatttattgcattgctttgttgcaaaggatatgaatacaaattaggat-
||||||||||| ||||| || ||||||  |||| | || ||||| ||||||||| | ||||| ||||| ||| | ||||||||||||||||||||||| |||| |||  | |  ||   |||  || |   |    ||     |       |  ||||| | ||    |||||   ||| |    |  | ||     ||  
AATCCTCTTGACTTGCTACCACCAAGCCCAATGGTTCTCGATGACTGGAAGAGGCTTTACTCGAACACCAAATCCAACTTCCGTGAGGTTGCTATCAAAGgtatgtta-tatgatgacttctgttaattgttctttagaagaaattgttctaggtttatggaatcaacttgttaagaagaaagctacaaaaatccgagaca

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|33687434|gb|CF315673.1|CF315673
EST:     AAAAACAAACTTCCGTGAGGTTGCTATCAAGG                         GTTTCTGGGATATGTATGACCCAGAAGGTTACTCCCTGTGGTTCTGCGACT
genomic: AAAAACAAACTTCCGTGAGGTTGCTATCAAGGgtaagtttct ... tgtattgcagGTTTCTGGGATATGTATGACCCAGAAGGTTACTCCCTGTGGTTCTGCGACT
EST: gi|5667501|gb|AU077470.1|AU077470
EST:     GAGGTTATACTCAAACAC-AAAAC-AACTTCCGTGAGGTTGCTATCAAGG                         GTTTCTGGGATATGTATGACCCAGAAGGTTACTCCCTGTGGTTCTGCGACT
genomic: GAGGTTATACTCAAACACAAAAACAAACTTCCGTGAGGTTGCTATCAAGGgtaagtttct ... tgtattgcagGTTTCTGGGATATGTATGACCCAGAAGGTTACTCCCTGTGGTTCTGCGACT
EST: gi|29678879|gb|CB675154.1|CB675154
EST:     GAGGTTATACTCAAACACAAAAACAAACTTCCGTGAGGTTGCTATCAAGG                         GTTTCTGGGATATGTATGACCCAGAAGGTTACTCCCTGTGGTTCTGCGACT
genomic: GAGGTTATACTCAAACACAAAAACAAACTTCCGTGAGGTTGCTATCAAGGgtaagtttct ... tgtattgcagGTTTCTGGGATATGTATGACCCAGAAGGTTACTCCCTGTGGTTCTGCGACT
EST: gi|38479113|gb|CF963246.1|CF963246
EST:     GAGGTTATACTCAAACACAAAAACAAACTTCCGTGAGGTTGCTATCAAGG                         GTTTCTGGGATATGTATGACCCAGAAGGTTACTCCCTGTGGTTCTGCGACT
genomic: GAGGTTATACTCAAACACAAAAACAAACTTCCGTGAGGTTGCTATCAAGGgtaagtttct ... tgtattgcagGTTTCTGGGATATGTATGACCCAGAAGGTTACTCCCTGTGGTTCTGCGACT
EST: gi|218482204|gb|FG951805.1|FG951805
EST:     GAGGTTATACTCAAACACAAAAACAAACTTCCGTGAGGTTGCTATCAAGG                         GTTTCTGGGATATGTATGACCCAGAAGGTTACTCCCTGTGGTTCTGCGACT
genomic: GAGGTTATACTCAAACACAAAAACAAACTTCCGTGAGGTTGCTATCAAGGgtaagtttct ... tgtattgcagGTTTCTGGGATATGTATGACCCAGAAGGTTACTCCCTGTGGTTCTGCGACT
EST: gi|89198471|gb|CI007531.1|CI007531
EST:     CAAACTTCCGTGAGGTTGCTATCAAGG                         GTTTCTGGGATATGTATGACCCAGAAGGTTACTCCCTGTGGTTCTGCGACT
genomic: CAAACTTCCGTGAGGTTGCTATCAAGGgtaagtttct ... tgtattgcagGTTTCTGGGATATGTATGACCCAGAAGGTTACTCCCTGTGGTTCTGCGACT