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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgaaaagttcctctctaccttttggttttgatacacttgtccaacttaaagcggattatgatgagaactacgtatcctttctcttcttactcaaggtttaacggcggttttttttaccgcaatgtgaggtcataatacttaaaaactttgttccactttacagGATTTTAGTGGGAGAGTGCATGGATTGAAGGTGGATGTAGTGGACACAACAGGTGCTGGTGATGCATTTGTTGCGGGGATACTATCGCAACTAGCCAATG

Basic information

species Arabidopsis thaliana
transcript AT1G66430.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G66430.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA14G39670.1 (Glycine max), 3'ss of exon 3
gtgtgaaaagttcctctctaccttttggttttgatacacttgtccaacttaaagcggattatgatgagaactacgtatcctttctcttcttactcaaggtttaacggcggttttt-tttaccgcaatgtgaggtcataatacttaaaaactttgttccac------tttacagGATTTTAGTGGGAGAGTGCATGGATTGAAGGTGGATGTAGTGGACACAACAGGTGCTGGTGATGCATTTGTTGCGGGGATACTATCGCAACTAGCCAATG
                                                                        |  |||   ||||    |     ||  |||   |   ||| |  | |||     | | |  | ||||||  ||   |   ||| | ||      ||| ||||| ||  |||| || ||  | ||||||||||||||||  || ||||| || |||||||||||||||||||| || || |||||||| ||| ||||    |
------------------------------------------------------------------------agttattagttctaaattctaataacatttggtgctagttatagtgtactaatgtattat-tgataataactatggagcctgtcctactatttctttgcagGAGTTCTGTGGTAGGGTCAAGGGATTGAAGGTGGATGCTGTTGACACCACTGGTGCTGGTGATGCATTTGTGGCTGGAATACTATCACAATTAGCTGTGG

upper sequence: AT1G66430.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv14s0006g01410.t01 (Vitis vinifera), 3'ss of exon 5
gtgtgaaaagttcctctctaccttttggttttgatacacttgtccaacttaaagcggattatgatgagaactacgtatcctttctcttcttactcaaggtt-taacg--gcggttttttttaccgcaatgtgaggtcataatacttaaaaactttgttccactt-tacagGATTTTAGTGGGAGAGTGCATGGATTGAAGGTGGATGTAGTGGACACAACAGGTGCTGGTGATGCATTTGTTGCGGGGATACTATCGCAACTAGCCAATG
                                                                   ||| |      || ||   || || |      ||  || |  || || | | ||     | |||||      ||   ||  |     || |  | || | ||||| || |||||||||||  | || || || ||||||| ||||||||| ||||| ||||| ||||| |||||||| || ||| |||| ||||||||   ||
-------------------------------------------------------------------gaatttttagacccttgcttttttgcaagcaattacaatgatgcagtctgtcttctgagattgtgaacctgaaa---ttgcatgggatgctttatttgttcagGACTTCAGTGGGAGAGTTAAAGGTTTAAAAGTGGATGCAGTGGACACCACAGGCGCTGGGGATGCTTTTGTTGCTGGAATATTATCACAACTAGCTGCTG
















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|164226920|gb|ES088876.1|ES088876
EST:     GAAGGCTGTCGGTACTACACCAAG                         GATTTTAGTGGGAGAGTGCATGGATTGAAGGTGGATGTAGTGGACACAAC
genomic: GAAGGCTGTCGGTACTACACCAAGgtgtgaaaag ... cactttacagGATTTTAGTGGGAGAGTGCATGGATTGAAGGTGGATGTAGTGGACACAAC
EST: gi|125195504|gb|EL210458.1|EL210458
EST:     CTGTCGGTACTACACCAAG                         GATTTTAGTGGGAGAGTGCATGGATTGAAGGTGGATGTAGTGGACACAACA
genomic: CTGTCGGTACTACACCAAGgtgtgaaaag ... cactttacagGATTTTAGTGGGAGAGTGCATGGATTGAAGGTGGATGTAGTGGACACAACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttttaccgcaatgtgaggtcataatacttaaaaactttgttccactttacagGATTTTAGTGGGAGAGTGCATGGATTGAAGGTGGATGTAGTGGACACAACAGGTGCTGGTGATGCATTTGTTGCGGGGATACTATCGCAACTAGCCAATG
                                     ctttgttccacttt  CT-rich tract
                       ataatacttaaaaact  TA-rich tract