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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTAGGCACTGGGATTCCTTCTATGATTTCTACAGGAACACAACTGATAACAAgtttagtctttatctttgagacatttttgtttttcttatcattagtacacattatgtgtctttgtgcataataaacatacttacattcaattacctgtcatcgtcaagtgtatgcattacctgtgtttgtcctttcacatgcttaacgatttccggctaattttag

Basic information

species Arabidopsis thaliana
transcript AT2G23390.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G23390.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA07G40290.3 (Glycine max), 5'ss of exon 5
GCTAGGCACTGGGATTCCTTCTATGATTTCTACAGGAACACAACTGATAACAAgtttagtctttatctttgagacatttttgtttttcttatcattagtacacattatgtgtctttgtgcataataaacatacttacattcaattacctgtcatcgtcaagtgtatgcattacctgtgtttgtcctttcacatgcttaacgatttccggctaattttag
|||||||||||||||||||||||   ||| ||||||||||||||||||||||||| |     ||  | |   |  |  ||    |||    |    |  | | | | ||      || | ||  |  |  |      ||| | | |    |  | ||| | ||   |                                                    
GCTAGGCACTGGGATTCCTTCTACTCTTTTTACAGGAACACAACTGATAACAAgtatg----ttgccctaatggaaccttcaaattttgatttgaaaaaaaaaagtttgatgacatgggaatggttgaactgtcagtatttagt-attgttgtttgtctactgacag----------------------------------------------------

upper sequence: AT2G23390.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA17G00490.1 (Glycine max), 5'ss of exon 5
GCTAGGCACTGGGATTCCTTCTATGATTTCTACAGGAACACAACTGATAACAAgtttagtctttatctttgagacatttttgtttttcttatcattagtacacattatgtgtctttgtgcataataaacatacttacattcaattacctgtcatcgtcaagtgtatgcattacctgtgtttgtcctttcacatgcttaacgatttccggctaattttag
|||||||||||||||||||||||   ||| ||||||||||||||||||||||||| | ||     |  | ||  | |     |||   ||   |  |  | | | | ||    | || | ||  |  |  |      ||| | | |    |  | ||| | ||   |                                                    
GCTAGGCACTGGGATTCCTTCTACACTTTTTACAGGAACACAACTGATAACAAgtat-gttgccctaatggaaccttcaaattttgatttgaaaaaaagaaaaagtttgatggtatgggaatggttgaagtgtcagtatttagt-attattgttggtctactgacag----------------------------------------------------

upper sequence: AT2G23390.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA17G00490.2 (Glycine max), 5'ss of exon 5
GCTAGGCACTGGGATTCCTTCTATGATTTCTACAGGAACACAACTGATAACAAgtttagtctttatctttgagacatttttgtttttcttatcattagtacacattatgtgtctttgtgcataataaacatacttacattcaattacctgtcatcgtcaagtgtatgcattacctgtgtttgtcctttcacatgcttaacgatttccggctaattttag
     ||||||||||||||||||   ||| ||||||||||||||||||||||||| | ||     |  | ||  | |     |||   ||   |  |  | | | | ||    | || | ||  |  |  |      ||| | | |    |  | ||| | ||   |                                                    
-----GCACTGGGATTCCTTCTACACTTTTTACAGGAACACAACTGATAACAAgtat-gttgccctaatggaaccttcaaattttgatttgaaaaaaagaaaaagtttgatggtatgggaatggttgaagtgtcagtatttagt-attattgttggtctactgacag----------------------------------------------------

upper sequence: AT2G23390.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv12s0035g01750.t01 (Vitis vinifera), 5'ss of exon 9
GCTAGGCACTGGGATTCCTTCTATGATTTCTACAGGAACACAACTGATAACAAgtttagtctttatctttgagacatttttgtttttcttatcattag-tacacattatgtgtctttgtgcataataaacatacttacattcaattacctgtcatcgtcaagtgtatgcattacctg---tgtttgtcctt-tcacatgcttaacg-atttccggctaattttag
|||| ||||||||||||||| ||  | ||||| |||||||| ||||||||||||| | |||  |||| ||    | ||| || | |  |||  || |  | |  ||  | |    ||||    ||| |||||  |   |||   ||   | ||   |  |  ||| || ||    ||   || |||  ||| || ||| || ||     |   |  | || ||||
GCTAAGCACTGGGATTCCTTTTACAAGTTCTATAGGAACACCACTGATAACAAgtatggtcaatatcatttgaccgtttctgatctctttacaatgaaattcttatatttttaaattgttatcaatcaacatgttattatt---ttctttatccatgaaatatgt-tgaatcgtttgaaatgcttgaacttgtcgcattctaaagacgctgttgatttatcttag

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|125203248|gb|EL218202.1|EL218202
EST:     CACAACTGATAACAA                         ATGGGGCACACCTTATCTCACAAGGGATTTCTTTCACGACATGGCATCGAA
genomic: CACAACTGATAACAAgtttagtctt ... ctaattttagATGGGGCACACCTTATCTCACAAGGGATTTCTTTCACGACATGGCATCGAA
EST: gi|125228196|gb|EL242281.1|EL242281
EST:     AGGCACTGGGATTCCTTCTATGATTTCTACAGGAACACAACTGATAACAA                         ATGGGGCACACCTTATCTCACAAGGGATTTCTTTCACGACATGGCATCG
genomic: AGGCACTGGGATTCCTTCTATGATTTCTACAGGAACACAACTGATAACAAgtttagtctt ... ctaattttagATGGGGCACACCTTATCTCACAAGGGATTTCTTTCACGACATGGCATCG
EST: gi|125235342|gb|EL249427.1|EL249427
EST:     CACAACTGATAACAA                         ATGGGGCACACCTTATCTCACAAGGGATTTCTTTCACGACATGGCATCGAA
genomic: CACAACTGATAACAAgtttagtctt ... ctaattttagATGGGGCACACCTTATCTCACAAGGGATTTCTTTCACGACATGGCATCGAA