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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcctctctctcttcacttactttcgtaccttaattgtaccttcaaaatgcaaaactctcaattcttttgatttggtattcagGCCAACCACTGGTGGTGTTGCTCCAGCTCCTGCCATCGCAGCTACTGAAGCCAAAGCCTAAACAATGACGAAAAAGGTTATTAGGAGTTCGATGGGGTAG

Basic information

species Arabidopsis thaliana
transcript AT5G14040.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G14040.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv14s0068g01260.t01 (Vitis vinifera), 3'ss of exon 5
gtaagttcctctctctctt-cacttactttcgtaccttaattgtaccttcaaaatgcaaaactctcaattcttttgatttggtattcagGCCAACCACTGGTGGTGTTGCTCCAGCTCCTGCCATCGCAGCTACT---GAA---GCCAAAGCCTAAACAATGACGAAAAAGGTTATTAGGAGTTCGATGGGGTAG
|||||||| ||     |     || |  ||| |    |  || ||  ||         |    || | |   | |||| |  | ||||||||||||||||||||| ||||||| |||||| |     || | |||   ||    || || ||||| |   |      |  |||    ||   || ||||      
gtaagttcttcctatgcaaatgctgatcttcatttggtgttt-tagttttttttctttagttgctaattcggtatgatcttatcttcagGCCAACCACTGGTGGTATTGCTCCTGCTCCTCCTGCTCCAACGACTTCTGAGCTTGCAAAGGCCTAGAATGTTGAATTATCGGTATACAGAGTTTAGATG------
















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|164042419|gb|ES081285.1|ES081285
EST:     GGGATTATACGATGCCTTCAAAGTGTTTGTTGGCCT                         GCCAACCACTGGTGGTGTTGCTCCAGCTCCTGCCA
genomic: GGGATTATACGATGCCTTCAAAGTGTTTGTTGGCCTgtaagttcct ... tggtattcagGCCAACCACTGGTGGTGTTGCTCCAGCTCCTGCCA
EST: gi|125266817|gb|EL280902.1|EL280902
EST:     TGCCTTC-AAGTGTTTGTTGGCCT                         GCCAACCACTGGTGGTGTTGCTCCAGCTCCTGCCATCGCAGCTACTGAAGC
genomic: TGCCTTCAAAGTGTTTGTTGGCCTgtaagttcct ... tggtattcagGCCAACCACTGGTGGTGTTGCTCCAGCTCCTGCCATCGCAGCTACTGAAGC
EST: gi|125117125|gb|EL166392.1|EL166392
EST:     TGCCTTCAAAGTGTTTGTTGGCCT                         GCCAACCACTGGTGGTGTTGCTCCAGCTCCTGCCATCGCAG
genomic: TGCCTTCAAAGTGTTTGTTGGCCTgtaagttcct ... tggtattcagGCCAACCACTGGTGGTGTTGCTCCAGCTCCTGCCATCGCAG
EST: gi|125226367|gb|EL240452.1|EL240452
EST:     TGGGGATTATACGATGCCTTCAAAGTGTTTGTTGGCCT                         GCCAACCACTGGTGGTGTTGCTCCAGCTCCTGCCATC
genomic: TGGGGATTATACGATGCCTTCAAAGTGTTTGTTGGCCTgtaagttcct ... tggtattcagGCCAACCACTGGTGGTGTTGCTCCAGCTCCTGCCATC
EST: gi|164084730|gb|ES148122.1|ES148122
EST:     GGGGATTATACGATGCCTTCAAAGTGTTTGTTGGCCT                         GCCAACCACTGGTGGTGTTGCTCCAGCTCCTGCCA
genomic: GGGGATTATACGATGCCTTCAAAGTGTTTGTTGGCCTgtaagttcct ... tggtattcagGCCAACCACTGGTGGTGTTGCTCCAGCTCCTGCCA
EST: gi|164210001|gb|ES159885.1|ES159885
EST:     ACAGTGGGGATTATACGATGCCTTCAAAGTTGTTTGTTGGCCT                         GCCAACCACTGGTGGTGTTGCTCCAGCTCCTGCCATCGCAGCTACTGAAGC
genomic: ACAGTGGGGATTATACGATGCCTTCAAAG-TGTTTGTTGGCCTgtaagttcct ... tggtattcagGCCAACCACTGGTGGTGTTGCTCCAGCTCCTGCCATCGCAGCTACTGAAGC
EST: gi|125251806|gb|EL265891.1|EL265891
EST:     ACTGGAGCACAGTGGGGATTATACGATGCCTTCAAAGTGTTTGTTGGCCT                         GCCAACCACTGGTGGTGTTGCTCCAGCTCCTGCCATCG
genomic: ACTGGAGCACAGTGGGGATTATACGATGCCTTCAAAGTGTTTGTTGGCCTgtaagttcct ... tggtattcagGCCAACCACTGGTGGTGTTGCTCCAGCTCCTGCCATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttaattgtaccttcaaaatgcaaaactctcaattcttttgatttggtattcagGCCAACCACTGGTGGTGTTGCTCCAGCTCCTGCCATCGCAGCTACTGAAGCCAAAGCCTAAACAATGACGAAAAAGGTTATTAGGAGTTCGATGGGGTAG
                                     ttttgat  putative branch site (score: 4)
                                aattcttttgattt  TA-rich tract