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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctttaatatataaccttctcttgtgtaaggctttgtcttatgtaaaacttgacaatggttttggtggcatttgtgtagATTGACTCGTTGGATACATTAGCTTTACTTGGTGACCGAGAGCGCTTCACTTCTTCTGTTGAATGGATTGGTAAAAATCTTCAGTTTAATATA

Basic information

species Arabidopsis thaliana
transcript AT5G43710.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G43710.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA10G32320.1 (Glycine max), 3'ss of exon 1
gtaagctttaatatataaccttctcttgtgtaaggctttgtcttatgtaaaacttgacaatggttttggtggcatttgtgt-agATTGACTCGTTGGATACATTAGCTTTACTTGGTGACCGAGAGCGCTTCACTTCTTCTGTTGAATGGATTGGTAAAAATCTTCAGTTTAATATA
    | |   ||    | ||   |||    | |       || | |  |     |   |||     ||    ||||  | | |||||||||| || || || || |||||||||||||||||  | || ||| || |||| |||||||||||||||||||||||||  ||| |||||
----gttcgtattcccatcccaatctcaaatcaaatcaaatcattttca-----ttctaattccaatgcattcattcctatcagATTGACTCTTTAGACACTTTGGCTTTACTTGGTGACCGCCAACGATTCTCTGCTTCCGTTGAATGGATTGGTAAAAATCTTCGCTTTGATATA

upper sequence: AT5G43710.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv05s0020g04650.t01 (Vitis vinifera), 3'ss of exon 2
----gtaagctttaatatataaccttctcttgtgtaaggctttgtcttatgtaaaacttgacaatggtttt---------ggtggcatt-tgt----gtagATTGACTCGTTGGATACATTAGCTTTACTTGGTGACCGAGAGCGCTTCACTTCTTCTGTTGAATGGATTGGTAAAAATCTTCAGTTTAATATA
    |  |  || | | | |    |||| |||  |     | | | ||||  ||   || | |||    ||         | ||||||  |||      |||||||||| || || ||| |||||||| | |||||||||||||| ||  || | || |||||||||||||||||||| |||| |||| |||| 
gtatgagaaattcattttcttttgttcttttgaatttatttatttgttattgaacttttcataataaacttttatatcatgttggcatcatgtcatcacagATTGACTCCTTAGACACACTAGCTTTATTGGGTGACCGAGAGCGGTTTGCTACCTCAGTTGAATGGATTGGTAAAAACCTTCGGTTTGATATT
















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|163993776|gb|ES195776.1|ES195776
EST:     TTATCTTGACCAAAGGAGAAGATACTCTTGGAGGCTATGCGTTGACTCTG                         ATTGACTCGTTGGATACATTAGCTTTAC
genomic: TTATCTTG-CC-AAGGAGAAGATACTCTTGGAGGCTATGCGTTGACTCTGgtaagcttta ... atttgtgtagATTGACTCGTTGGATACATTAGCTTTAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtaaggctttgtcttatgtaaaacttgacaatggttttggtggcatttgtgtagATTGACTCGTTGGATACATTAGCTTTACTTGGTGACCGAGAGCGCTTCACTTCTTCTGTTGAATGGATTGGTAAAAATCTTCAGTTTAATATA
                       acttgac  putative branch site (score: 4)
              ttatgtaaaa  TA-rich tract