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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactctatcgaataagcttacacttttttgtttttctttagcagaatctaaagttacctctctaatctactctgtttacttttgctttggaacagAATCTAAAGTCAAATCTGACAATGTGGAAACTTGGAACCTTGCCTCCTGCTCTTATCGCGTTCAAGGGTCACGTACACATAATAGACTCGTCATGGCATA

Basic information

species Arabidopsis thaliana
transcript AT5G15470.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G15470.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA08G26480.1 (Glycine max), 3'ss of exon 5
-gtaactctatcgaataagcttacacttttttgtttttctttagcagAATCTAAAGTTACCTCTCT---AATCTACTCTGTTTACTTTTGCTTTGGAACAGAATCTAAAGTCAAATCTGACAATGTGGAAACTTGGAACCTTGCCTCCTGCTCTTATCGCGTTCAAGGGTCACGTACACATAATAGACTCGTCATGGCATA
 | ||||  |  ||    | |   | |      | ||         |  | ||| ||| |   |     ||| |  | | || ||  || |  |    |||||||| ||||||||||||||||||||||| ||||||||| ||||||||||| | || || || || || |  || ||    || ||  | || ||||| |
tgaaactgaaa-gagggggttcgtattgagaattcttgggcatttggtctttaatgtttctgttaccaaaattttttttattgacagtttcactatggcagAATCTGAAGTCAAATCTGACAATGTGGAAGCTTGGAACCCTGCCTCCTGCTTTGATTGCATTTAAAGGACTTGTTCATCCGATTGATCCCTCTTGGCACA

upper sequence: AT5G15470.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA18G49960.1 (Glycine max), 3'ss of exon 5
gtaactctatcgaataagcttacacttttttgtttttctttagca----gAATCTAAAGTTACCTCTCTAATCTACTCTGTTTACTT----TTGCTTTGGAACAGAATCTAAAGTCAAATCTGACAATGTGGAAACTTGGAACCTTGCCTCCTGCTCTTATCGCGTTCAAGGGTCACGTACACATAATAGACTCGTCATGGCATA
  ||||  ||       |    | | | || |   |||||  |||    |  | ||| ||| |   |   ||  | | | |||| |      | |  |    |||||||| |||||||| |||||||||||||| ||||||||| | ||||||||| | || || || || || |  || |||  ||| ||  | || ||||| |
--aactgaataagggggg---gcccgtattgggaattcttgggcatttggtctttaatgtttctgttaccataaaatatatttattgacagcttcactatggcagAATCTGAAGTCAAACCTGACAATGTGGAAGCTTGGAACCCTTCCTCCTGCTTTAATTGCATTTAAAGGACTTGTTCACCCAATTGATCCCTCTTGGCACA

upper sequence: AT5G15470.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA13G05950.1 (Glycine max), 3'ss of exon 5
gtaactctat---cgaataagcttacacttttttgtttttctttagcagAATCTAAAGTTACCTCTCTAATCTACTCTGTTTACTTTTGCTTTGGAACAGAATCTAAAGTCAAATCTGACAATGTGGAAACTTGGAACCTTGCCTCCTGCTCTTATCGCGTTCAAGGGTCACGTACACATAATAGACTCGTCATGGCATA
|| | | | |    ||    |  |  |    |   | | | | ||  ||    |||  | ||  |     |   || |  || ||| || | ||  ||||||||||| |||||| ||||| |||||||| ||||||||| | || |||||| | || || ||||| ||||| || |||   || | | | || ||||| |
gtgagtgtgtgtgtgagagtgtgtgtatacatgcatgtgtgtgtattaggtggtaatatgacaacagatgtgacctttagtttcttatgttctgtgacagAATCTAAGGTCAAACCTGACGATGTGGAAGCTTGGAACCCTACCCCCTGCTTTGATTGCATTCAAAGGTCATGTTCACCCGATTGGCCCCTCTTGGCACA

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|125171508|gb|EL194346.1|EL194346
EST:     AGGAAAACAAATATCAGAGAAACGTATCACTCTTGGCTTAGAGAG                         AATCTAAAGTCAAATCCGACAATGTGGAAACTTGGAACCTTGCCTCCTGCT
genomic: AGGAAAACAAATATCAGAGAAACGTATCACTCTTGGCTTAGAGAGgtaactctat ... tttggaacagAATCTAAAGTCAAATCTGACAATGTGGAAACTTGGAACCTTGCCTCCTGCT
EST: gi|125033532|gb|EL105801.1|EL105801
EST:     AGAAACGTATCACTCTTGGCTTAGAGAG                         AATCTAAAGTCAAATCTGACAATGTGGAAACTTGGAACCTTGCCTCCTGCT
genomic: AGAAACGTATCACTCTTGGCTTAGAGAGgtaactctat ... tttggaacagAATCTAAAGTCAAATCTGACAATGTGGAAACTTGGAACCTTGCCTCCTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcagaatctaaagttacctctctaatctactctgtttacttttgctttggaacagAATCTAAAGTCAAATCTGACAATGTGGAAACTTGGAACCTTGCCTCCTGCTCTTATCGCGTTCAAGGGTCACGTACACATAATAGACTCGTCATGGCATA
                   ctctaat  putative branch site (score: 3)
                                  tttacttttgcttt  putative PPT
                                  tttactttt  TA-rich tract