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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcatctaaatgtttagttacttgcgtctcaagttgaaacaaaccctaacgccaactcttgtggatcgacgtagGTGCGCATACGTTCGGGCGTGCTCGATGTGGAGTATTCAACAACAGACTATTTAACTTCAGCGGGACAGGAAATCCCGATCCAACTCTAAACTCAACGCT

Basic information

species Arabidopsis thaliana
transcript AT5G06720.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G06720.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G28880.2 (Glycine max), 3'ss of exon 3
------------------gtaagtt-----catctaaatgtttagttacttgcgtctcaagttgaaacaaaccctaacgccaactcttgtggatcgacgtagGTGCGCATACGTTCGGGCGTGCTCGATGTGGAGTATTCAACAACAGACTATTTAACTTCAGCGGGACAGGAAATCCCGATCCAACTCTAAACTCAACGCT
                   |||  |     ||| ||||  ||  | |      |    || || | | ||    | || | || |    |   ||    ||||||| || || || || ||| | | ||||  | | |||  | | ||  | || ||||||||||| ||||||| ||| |||||||| |||||||||||   
taaagattagtcaaattaataatcttgcagcatgtaaaatttatgctttccatgcacaaattttacaaaatggttgactcaaatttcactttttcat--tagGTGCACACACTTTTGGTCGTTCCCAATGTCAATTTTTCTCCCAAAGGTTGTTCAACTTCAGCGGCACAGGAAGTCCTGATCCAACCCTAAACTCAACCTA
















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|116415273|gb|EG457865.1|EG457865
EST:     TAAATTTTCGGCTGTCGGGCTTAATACAAACGATCTGGTAGCCTTATCTG                         GTGCGCATACGTTCGGGCGTGCTCGATGTGGA
genomic: TAAATTTTCGGCTGTCGGGCTTAATACAAACGATCTGGTAGCCTTATCTGgtaagttcat ... atcgacgtagGTGCGCATACGTTCGGGCGTGCTCGATGTGGA
EST: gi|86080257|gb|DR376014.1|DR376014
EST:     GAAATTTTCGGCTGTCGGGCTTAATACAAACGATCTGGTAGCCTTATCTG                         GTGCGCATACGTTCGGGCGTGCTCGATGTGGAGTATTCAACAACAGACTAT
genomic: TAAATTTTCGGCTGTCGGGCTTAATACAAACGATCTGGTAGCCTTATCTGgtaagttcat ... atcgacgtagGTGCGCATACGTTCGGGCGTGCTCGATGTGGAGTATTCAACAACAGACTAT
EST: gi|116474725|gb|EG517317.1|EG517317
EST:     TAAATTTTCGGCTGTCGGGCTTAATACAAACGATCTGGTAGCCTTATTTG                         GTGCGCATACGTTCGGGCGTGCTCGATGTGGAGTATTCAACAACAGACTAT
genomic: TAAATTTTCGGCTGTCGGGCTTAATACAAACGATCTGGTAGCCTTATCTGgtaagttcat ... atcgacgtagGTGCGCATACGTTCGGGCGTGCTCGATGTGGAGTATTCAACAACAGACTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttgcgtctcaagttgaaacaaaccctaacgccaactcttgtggatcgacgtagGTGCGCATACGTTCGGGCGTGCTCGATGTGGAGTATTCAACAACAGACTATTTAACTTCAGCGGGACAGGAAATCCCGATCCAACTCTAAACTCAACGCT
                        ccctaac  putative branch site (score: 2)
                 aaacaaa  TA-rich tract