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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaatcttcttccttctggagacagataaaaattattataacaacctataccagtagttgtatatatcacgtaggatgctgaaagatagctaaaattacataatactgaaagttattgacaccaggtttgctcatgcgtatgcagGTTGTGTTAGGCACGTTGTTAGCGGCATTGGTGCCTGTTGTTGGTTTCAATGCGGTTTTGACTTCTGAACATTTTGCCTCGTTTTTG

Basic information

species Arabidopsis thaliana
transcript AT5G19690.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G19690.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv11s0016g03320.t01 (Vitis vinifera), 3'ss of exon 9
gtaagaatcttcttccttctggagacagataaaaattattataacaacctataccagtagttgtatatatcacgtaggatgctgaaagatagctaaaattacataatactgaaagttattgacaccaggttt-gctcatgcgtatgcagGTTGTGTTAGGCACGTTGTTAGCGGCATTGGTGCCTGTTGTTGGTTTCAATGCGGTTTTGACTTCTGAACATTTTGCCTCGTTTTTG
                                             |    | |||| |  |||  |    || | |  |   ||    ||| ||    | ||| |  | |     ||  |   |  |  | | |||  | | | ||||||||||||| || || |||||||| || |||||||||||||||||||||||||| ||  |||| || ||||||||||| || ||| ||
---------------------------------------------attagacaccaatgtttggttgc--caggaaaaaaaatgtttcataactttt-taacaaagaaatctcttttccttgtagtatttatagctttttcat-tgcagGTTGTGTTGGGAACATTGTTAGCAGCTTTGGTGCCTGTTGTTGGTTTCAATGCAGTAATGACATCAGAACATTTTGCATCATTTCTG
















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|164057675|gb|ES177316.1|ES177316
EST:     TTGTAACTGGGCGATACTTTCCCCGACTGTACATTGCCTATGCTCCTTTG                         GTTGTGTTAGGCACGTTGTTAGCGGCATTGGTGCCTGTTGTTGGTTT
genomic: TTGTAACTGGGCGATACTCTCCCCGACTGTACATTGCCTATGCTCCTTTGgtaagaatct ... gcgtatgcagGTTGTGTTAGGCACGTTGTTAGCGGCATTGGTGCCTGTTGTTGGTTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaaattacataatactgaaagttattgacaccaggtttgctcatgcgtatgcagGTTGTGTTAGGCACGTTGTTAGCGGCATTGGTGCCTGTTGTTGGTTTCAATGCGGTTTTGACTTCTGAACATTTTGCCTCGTTTTTG
                       tattgac  putative branch site (score: 2)
     ttacataata  TA-rich tract