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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagggtttcagtgttttccaattgatttaaatgctgcctgttcatatatagcttactctatatattgtcacagAATGAGATGCAGAAGACTTGGTTGTGTAAAAGGTGTGAGACCATGAATGCAAAATTAAG

Basic information

species Arabidopsis thaliana
transcript AT1G50710.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G50710.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA08G42870.1 (Glycine max), 3'ss of exon 8
gtaagggtttcagtgttttccaattgatttaaatgctgcctgttcatatata-----gcttactctatatattgtcacagAATGAGATGCAGAAGACTTGGTTGTGTAAAAGGTGTGAGACCATGAATGCAAAATTAAG
|| ||  |||     ||    | |  | |    || |  || |  | |||||      ||||| | |  ||||     || |||||||||||||||||||| | |||||||||||||||||||||| ||| ||||| ||
gtcagtatttattatttaattattccactatgttgatagctatggacatatatcttcacttaccccacgtatt--tgtagGATGAGATGCAGAAGACTTGGCTCTGTAAAAGGTGTGAGACCATGAGTGCGAAATTGAG

upper sequence: AT1G50710.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA18G11000.1 (Glycine max), 3'ss of exon 8
gtaagggtttcagtgttttccaattg--atttaaatgctgcctgttcatata---tagcttactctatatattgtcacagAATGAGATGCAGAAGACTTGGTTGTGTAAAAGGTGTGAGACCATGAATGCAAAATTAAG
|| ||  ||| | | |||   ||||   | |    || |  ||    | |||   |  ||||  | || ||||     || |||||| ||||||||||||| | |||||||||||||||||||||| ||| ||||| ||
gtcagtattt-attatttaataatttccactatgttgatagctaaggacataccttcacttagcccatgtatt--tgtagGATGAGACGCAGAAGACTTGGCTCTGTAAAAGGTGTGAGACCATGAGTGCGAAATTGAG

upper sequence: AT1G50710.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv19s0090g00440.t01 (Vitis vinifera), 3'ss of exon 8
----------------------------------------------------------------------------gtaagggtttcagtgttttc-caattgatttaaatgctgcctg--------ttcatatatagcttactctatatattgtcacagAATGAGATGCAGAAGACTTGGTTGTGTAAAAGGTGTGAGACCATGAATGCAAAATTAAG
                                                                             |      | || | | ||    |||   ||   |  | | ||        || | |  ||   ||   |   |  | | | || ||||  | || || |||||| | |||||||||||||||||||||| ||||||||| ||
gtaagtttctccattttagttcattctaatgtttaaagatgtatttgagtatcataattaacattatgctttgtgtctggtaaatccaatttctttatgattatgttcttttttccttggaggaactttgaaacttattatatcttgctttcttttatagGATGAACTACAAAAAACTTGGCTATGTAAAAGGTGTGAGACCATGAGTGCAAAATTGAG

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|164109172|gb|ES174094.1|ES174094
EST:     ACTTATAAAGCTTGTGAAGGATCTAAAGTTAGAACACTCAACACAAATAT                         AATGAGATGCAGAAGACTTGGTTGTGTAAA-GGTGTGAGACCATGAA
genomic: ACTTATAAAGCTTGTGAAGGATCTAAAGTTAGAACA-TCAACACAAATATgtaagggttt ... attgtcacagAATGAGATGCAGAAGACTTGGTTGTGTAAAAGGTGTGAGACCATGAA
EST: gi|164170535|gb|ES170514.1|ES170514
EST:     TACTTATAAAGCTTGTGAAGGATCTAAAGTTAGAACATCAACACAAATAT                         AATGAGATGCAGAAGACTTGGTTGTGTAAA-GGTGTGAGACCATGAA
genomic: TACTTATAAAGCTTGTGAAGGATCTAAAGTTAGAACATCAACACAAATATgtaagggttt ... attgtcacagAATGAGATGCAGAAGACTTGGTTGTGTAAAAGGTGTGAGACCATGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caattgatttaaatgctgcctgttcatatatagcttactctatatattgtcacagAATGAGATGCAGAAGACTTGGTTGTGTAAAAGGTGTGAGACCATGAATGCAAAATTAAG
                               agcttac  putative branch site (score: 3)
                                  ttactctatatatt  TA-rich tract