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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcatatattcacatttctttcaaaatattttggcaaaattcaagaatcaatctttatggttttgagtattttgtgtcttatagGCTCTTCCACTTGTGAGTACATTTTGGGGAGTGGTTTTGTTTGGAGAATACAGAAGATCGTCACGGAAAACTTATCTACTTCTCTTCTGTATGTTGTTTA

Basic information

species Arabidopsis thaliana
transcript AT2G03530.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G03530.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA02G12980.1 (Glycine max), 3'ss of exon 6
------------gttcatatattcacatttctttcaaaatattttggcaaaattcaagaatcaatctttatggttttga---gtattttgtgtct-tatagGCTCTTCCACTTGTGAGTACATTTTGGGGAGTGGTTTTGTTTGGAGAATACAGAAGATCGTCACGGAAAACTTATCTACTTCTCTTCTGTATGTTGTTTA
               |  || || ||||||   |    ||  ||   |||| | | |   ||||| || |||||         | | || ||| | || |||| |||||||| |||||||| ||||||||  | |||||||||||||| ||| | | ||| ||| | | ||| ||| | || ||     | |||||| |||
gcttaccgaaaaacactcattttaacatttgacttgtgattgttcctcaaactaccaatttcaat-ttcatggtaacagaagatgtgttttgtttgtacagGCACTTCCACTAGTGAGTACCTTTTGGGGCATTGTTTTGTTTGGAGAGTACCGCAAATCATCAAGAAGAACATATGTGCTACTTGGGAGCATGTTGCTTA

upper sequence: AT2G03530.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv01s0011g00530.t01 (Vitis vinifera), 3'ss of exon 6
-------------------------------------------------gttcatatattcacatttctttcaaaatattttggcaaaattcaagaatcaatctttatggttttgagtattttgtg-tcttat-agGCTCTTCCACTTGTGAGTACATTTTGGGGAGTGGTTTTGTTTGGAGAATACAGAAGATCGTCACGGAAAACTTATCTACTTCTCTTCTGTATGTTGTTTA
                                                   ||||| ||     | | | |     | ||||     ||| |||  |  |     |     |||||   |||  || |   || |||| || ||||||||||| || || |||||| | ||| |||||||||||||| ||| ||||||| | | ||| ||| || | ||     | ||| |||| |
gtgagtttaagcacagcatacatattgacaaacacatacacatagaggcaatcataaatcggggtgtttgt--gtgtgttttcctgcaatccaatcagaatgtgctgatcatttgaacttttcatggtaacatcagGCACTCCCACTTGTGAGCACTTTCTGGGGAATAGTTCTGTTTGGAGAATACCGAAAATCGTCAAGAAGAACATATATATTGCTTGGGAGCATGCTGTTCA
















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|125216761|gb|EL230844.1|EL230844
EST:     AGCCGCAGGATACGCGGCTGCTGACTCCGTTCAG                         GCTCTTCCACTTGTGAGTACATTTTGGGGAGTGGTTTTGTTTGGAGAATAC
genomic: AGCCGCAGGATACGCGGCTGCTGACTCCGTTCAGgttcatatat ... tgtcttatagGCTCTTCCACTTGTGAGTACATTTTGGGGAGTGGTTTTGTTTGGAGAATAC
EST: gi|86087009|gb|DR382768.1|DR382768
EST:     AGTTTATGGGCGGTCAAGCCGCAGGATACGCGGCTGCTGACTCCGTTCAG                         GCTCTTCCACTTGTGAGTACATTTTGGGGAGTGGTTTTGTTTAGAGAATAC
genomic: AGTTTATGGGCGGTCAAGCCGCAGGATACGCGGCTGCTGACTCCGTTCAGgttcatatat ... tgtcttatagGCTCTTCCACTTGTGAGTACATTTTGGGGAGTGGTTTTGTTTGGAGAATAC
EST: gi|124954989|gb|EL030036.1|EL030036
EST:     GTTTATGGGCGGTTCAAGCCGCAGGATACGCGGCTGCTGACTCCGTTCAG                         GCTCTTCCACTTGTGAGTACATTTTGGGGAGTGGTTTTG
genomic: GTTTATGGGCGG-TCAAGCCGCAGGATACGCGGCTGCTGACTCCGTTCAGgttcatatat ... tgtcttatagGCTCTTCCACTTGTGAGTACATTTTGGGGAGTGGTTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttggcaaaattcaagaatcaatctttatggttttgagtattttgtgtcttatagGCTCTTCCACTTGTGAGTACATTTTGGGGAGTGGTTTTGTTTGGAGAATACAGAAGATCGTCACGGAAAACTTATCTACTTCTCTTCTGTATGTTGTTTA
      aaaattcaa  TA-rich tract