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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcctactactagaatattgaagtgatttgagtttgagtaatccttcaactagattgtttgagtcttgttgtttttatttcccttccgggtaattgcagGTACCTTCACTCTCTCTAACCTAGGAATGTTTGGCGTTGATCGGTTTGATGCTATTCTACCCCCTGGAACA

Basic information

species Arabidopsis thaliana
transcript AT1G34430.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G34430.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G31630.1 (Glycine max), 3'ss of exon 4
gtaatcctactactagaatattgaagtgatttgagtttgagtaatccttcaactagattgtttgagtcttgttgtttttatt--tcccttccgggtaattgcagGTACCTTCACTCTCTCTAACCTAGGAATGTTTGGCGTTGATCGGTTTGATGCTATTCTACCCCCTGGAACA
    |     || |  |   |     ||| |  | || |   ||       |||    |  |    | ||   |     | |  |  |||     |  ||  |||||| |||||||| || || || |||||||||||||||||||| |||||||||||||| || |||||||| 
----ttgccttagtccatcttatggttgaatccaattgggccaaattagggactctgattctgatattttccagcccccactgattgcttttatttttttatagGTACTTTCACTCTGTCCAATCTGGGAATGTTTGGCGTTGATCGCTTTGATGCTATTCTGCCACCTGGAACT

upper sequence: AT1G34430.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G35960.1 (Glycine max), 3'ss of exon 4
------gtaatcctactactagaatattgaagtgatttgagtttgagtaatccttcaactagattgtttgagtcttgttgtttttatttcccttccgggtaattgcagGTACCTTCACTCTCTCTAACCTAGGAATGTTTGGCGTTGATCGGTTTGATGCTATTCTACCCCCTGGAACA
       |   | |  ||       ||  || ||     ||||  || | ||        | ||| |    | |    || ||   |||   ||        ||  |||||| |||||||| || || || ||||||||||| |||||||| |||||||||||||| || |||||||| 
gaaaatatctccttgttatggttgaatccaattgggccaagtt-aaggagtctgattctgatattttccaggccccactgattgctttttatttt-------ttatagGTACTTTCACTCTGTCCAATCTGGGAATGTTTGGTGTTGATCGCTTTGATGCTATTCTGCCACCTGGAACT

upper sequence: AT1G34430.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G35960.2 (Glycine max), 3'ss of exon 4
------gtaatcctactactagaatattgaagtgatttgagtttgagtaatccttcaactagattgtttgagtcttgttgtttttatttcccttccgggtaattgcagGTACCTTCACTCTCTCTAACCTAGGAATGTTTGGCGTTGATCGGTTTGATGCTATTCTACCCCCTGGAACA-----------------------------
       |   | |  ||       ||  || ||     ||||  || | ||        | ||| |    | |    || ||   |||   ||        ||  |||||| |||||||| || || || ||||||||||| |||||||| |||||||||||||| || ||||||||                              
gaaaatatctccttgttatggttgaatccaattgggccaagtt-aaggagtctgattctgatattttccaggccccactgattgctttttatttt-------ttatagGTACTTTCACTCTGTCCAATCTGGGAATGTTTGGTGTTGATCGCTTTGATGCTATTCTGCCACCTGGAACTGTGAGTGTTTTACTCGTGCTCAAATATGG

upper sequence: AT1G34430.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv18s0072g01000.t01 (Vitis vinifera), 3'ss of exon 3
gtaatcctactactagaatattgaagtgatttgagtttgagtaatccttcaactagat---tgtttgagtcttgttgtttttatttcccttccgggtaattgcagGTACCTTCACTCTCTCTAACCTAGGAATGTTTGGCGTTGATCGGTTTGATGCTATTCTACCCCCTGGAACA
  |||     | | |  |   |    || ||      |   || | | |||| |  ||   ||||| | |   | ||| |    ||   || | |||  |||||||||| |||||||| || ||||| ||||||||||| || ||||||||||| || ||||| || |||||||| 
aaaattggcatgccatgaccattccttggttcctaccttgttatttcatcaagtctatccatgtttaatttcagatgtat---gtttgattgctggt--ttgcagGTACTTTCACTCTTTCAAACCTTGGAATGTTTGGTGTGGATCGGTTTGACGCAATTCTGCCACCTGGAACT

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|164020370|gb|EL990588.1|EL990588
EST:     GCCAAGCAGCTGCAGCCTCAGGAGTACAACACTG                         GTACCTTCACTCTCTCTAACCTAGGAATGTTTGGCGTTGATCGGTTTGATG
genomic: GCCAAGCAGCTGCAGCCTCAGGAGTACAACACTGgtaatcctac ... gtaattgcagGTACCTTCACTCTCTCTAACCTAGGAATGTTTGGCGTTGATCGGTTTGATG
EST: gi|125123190|gb|EL169639.1|EL169639
EST:     GGTTGATAAGGCTCGAGCCAAGCAGCTGCAGCCTCAGGAGTACAACACTG                         GTACCTTCACTCTCTCTAACCTAGGAATGTTTGGCGTTGATCGGTT
genomic: GGTTGATAAGGCTCGAGCCAAGCAGCTGCAGCCTCAGGAGTACAACACTGgtaatcctac ... gtaattgcagGTACCTTCACTCTCTCTAACCTAGGAATGTTTGGCGTTGATCGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcaactagattgtttgagtcttgttgtttttatttcccttccgggtaattgcagGTACCTTCACTCTCTCTAACCTAGGAATGTTTGGCGTTGATCGGTTTGATGCTATTCTACCCCCTGGAACA
                     ttgttgtttttattt  TA-rich tract