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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaaatctcattgcatacatttatttacttctttttcaagaagatttggaatacaaacaaagattatgtaataagcattagtttttcttgtgttcagTGAAGTACGGGTTGAAGGATTGGAAACGTTGGATTATCTTGACAACTTGAAGGACAGAGAACGTTTTACCGAACAAGGCGATGCGATAACTTTTGAATCC

Basic information

species Arabidopsis thaliana
transcript AT5G57330.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G57330.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA13G00780.1 (Glycine max), 3'ss of exon 5
gttaaatctca--ttgcatacatttatttacttctttttcaa--gaagatttggaatacaaacaaagattatgtaataagcattagtttttcttgtgttcagTGAAGTACGGGTTGAAGGATTGGAAACGTTGGATTATCTTGACAACTTGAAGGACAGAGAACGTTTTACCGAACAAGGCGATGCGATAACTTTTGAATCC
 |   | |  |  | | ||  ||||||||| || |||||     || |  |     |  |  ||   ||| || | |     |||  ||| ||||| ||||||||||| |||||||||||||| || || ||||||||||||||||||||| || | || ||||| ||||| ||||| || |||||  |||| |||||||| 
-taggaccggagatagtatttatttatttatttatttttatgttgagggatatacttttaggcagcaattttgaattgcat-ttaactttgcttgtattcagTGAAGTGCGGGTTGAAGGATTAGAGACATTGGATTATCTTGACAACTTGCAGAAAAGGGAACGCTTTACTGAACAGGGGGATGCTTTAACATTTGAATCG

upper sequence: AT5G57330.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA17G06880.1 (Glycine max), 3'ss of exon 5
gttaaatctcattgcatacatttatttacttctttttcaagaagatttggaatacaaacaaagattat-gtaataagca---ttagtttttcttgtgttcagTGAAGTACGGGTTGAAGGATTGGAAACGTTGGATTATCTTGACAACTTGAAGGACAGAGAACGTTTTACCGAACAAGGCGATGCGATAACTTTTGAATCC
  |  | || | ||      || ||||| || ||| |    | | |  || ||| |     ||| |   ||  | |      |||  ||| ||||| ||||||||||| |||||||||||||| || || ||||||||||||||||||||| || | || ||||| ||||| ||||| || |||||  |||| |||||||| 
--tttagcttactgtcagttttgatttatttatttatatttatgttgagggatatactttgagactgcagttttgaattaatttaactttgcttgtattcagTGAAGTGCGGGTTGAAGGATTAGAGACATTGGATTATCTTGACAACTTGCAGAAAAGGGAACGCTTTACTGAACAGGGGGATGCTTTAACATTTGAATCA

upper sequence: AT5G57330.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA15G17630.1 (Glycine max), 3'ss of exon 5
-gttaaatctcattgcatacatttatttacttctttttcaagaagatttggaatacaa-acaaagatta-tgtaataagcattagtttttcttgtgttcagTGAAGTACGGGTTGAAGGATTGGAAACGTTGGATTATCTTGACAACTTGAAGGACAGAGAACGTTTTACCGAACAAGGCGATGCGATAACTTTTGAATCC
   ||   ||  |||  |   ||| | ||| |   ||| |  |  |||   | || || |||   ||||   |  ||    ||  |||  | ||  ||||||||||| |||||||| |||||||| ||  |||||||||| || |||||| || |||  || || ||||| ||||| || |||||  ||||||||||||| 
ttctatggctttttgtcttattttctgtacattgatttaattattattattattataatacatgaattaacatcttacttgtttatttg-catgaattcagTGAAGTTCGGGTTGAGGGATTGGAGACCCTGGATTATCTCGATAACTTGCAGAACAAGGAGCGCTTTACTGAACAGGGGGATGCTTTAACTTTTGAATCA

upper sequence: AT5G57330.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA15G17630.3 (Glycine max), 3'ss of exon 5
gttaaatctcattgcatacatttatttacttctttttcaagaagatttggaatacaa-acaaagatta-tgtaataagcattagtttttcttgtgttcagTGAAGTACGGGTTGAAGGATTGGAAACGTTGGATTATCTTGACAACTTGAAGGACAGAGAACGTTTTACCGAACAAGGCGATGCGATAACTTTTGAATCC---
       ||  |||  |   ||| | ||| |   ||| |  |  |||   | || || |||   ||||   |  ||    ||  |||  | ||  ||||||||||| |||||||| |||||||| ||  |||||||||| || |||||| || |||  || || ||||| ||||| || |||||  |||||||||||||    
----tggctttttgtcttattttctgtacattgatttaattattattattattataatacatgaattaacatcttacttgtttatttg-catgaattcagtgaagTTCGGGTTGAGGGATTGGAGACCCTGGATTATCTCGATAACTTGCAGAACAAGGAGCGCTTTACTGAACAGGGGGATGCTTTAACTTTTGAATCAGAA

upper sequence: AT5G57330.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA09G06380.1 (Glycine max), 3'ss of exon 5
gttaaatctcattgcatacatttatttac-ttctttttcaagaagatt--tggaatacaaacaaagattatgtaataagcattagtttttcttgtgttcagTGAAGTACGGGTTGAAGGATTGGAAACGTTGGATTATCTTGACAACTTGAAGGACAGAGAACGTTTTACCGAACAAGGCGATGCGATAACTTTTGAATCC
 |||    | | | |||  ||  |   ||  |||  |||  | | |||  |  | ||  |  | | ||    ||| |    ||   ||| | ||  ||||||||||| ||||| || |||||||| ||  ||||||||||||| |||||| || |||  || || ||||| ||||| || |||||  |||| |||||||| 
-ttattggtgactacatgaataaaaaaacactctaattcctgtacattgatttattattattatacatggattaacatcttttttatttgcatgaattcagTGAAGTTCGGGTAGAGGGATTGGAGACCCTGGATTATCTTGATAACTTGCAGAACAAGGAGCGCTTTACTGAACAGGGGGATGCTTTAACGTTTGAATCA

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|125073596|gb|EL137868.1|EL137868
EST:     CACCTATTTCTCTGTCTCAGACATCAG                         TGAAGTACGGGTTGAAGGATTGGAAACGTTGGATTATCTTGACAACTTGAA
genomic: CACCTATTTCTCTGTCTCAGACATCAGgttaaatctc ... ttgtgttcagTGAAGTACGGGTTGAAGGATTGGAAACGTTGGATTATCTTGACAACTTGAA
EST: gi|164183397|gb|ES021023.1|ES021023
EST:     TTACATTCACATTTGCTTAATCACACCTATTTCTCTGTCTCAGACATCAG                         TGAAGTACGGGTTGAAGGATTGGAAACGTTGGATTATCTTGACAAC
genomic: TTACATTCACATTTGCTT-ATCACACCTATTTCTCTGTCTCAGACATCAGgttaaatctc ... ttgtgttcagTGAAGTACGGGTTGAAGGATTGGAAACGTTGGATTATCTTGACAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatttggaatacaaacaaagattatgtaataagcattagtttttcttgtgttcagTGAAGTACGGGTTGAAGGATTGGAAACGTTGGATTATCTTGACAACTTGAAGGACAGAGAACGTTTTACCGAACAAGGCGATGCGATAACTTTTGAATCC
                                       tttttcttgtgttc  CT-rich tract
                aaagattatgtaataa  TA-rich tract