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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagacttgtgcgggtcatttttctcatggaattatacttgttgtgggcaggttcacggcagtcacattttaccgatattcaggctttctgtttttaaattcttatgtttgtttgagcagGATCATGTTGAAGGTTATCTCGAGCTGTCAGCAAAGACTAAAACTTACTTTACCACGGCTTTTGCAATGTGGGATGCAGACTTCTACGTCAAAGTCGATG

Basic information

species Arabidopsis thaliana
transcript AT4G26940.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G26940.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv19s0090g00560.t01 (Vitis vinifera), 3'ss of exon 6
----------------------gtaagacttgtgcgggtcatttttctcatgga-attatacttgttgtgg-gcaggttc-acggcagtcacattttaccgatattcaggctttctgtttttaaattcttatgtttgtttgagcagGATCATGTTGAAGGTTATCTCGAGCTGTCAGCAAAGACTAAAACTTACTTTACCACGGCTTTTGCAATGTGGGATGCAGACTTCTACGTCAAAGTCGATG
                              |||     | | |  |||  |  | |  | ||   |  |      | |||   | |     || |||   ||| |  ||  |  |||   |    ||  ||      |  |||||||| ||||| || || || || ||  | ||||||||||| ||  | |||||  |||| ||| |||| |||||||||||||| ||||| |||||||| ||||
gtagtgcttttgtatttgttcctcttcgtctgtttctcttaatactctagtatacacaacacacatccttacatggattctgtgtctccttcactttgttgatctgaagagtgactgacct-gcttttatactacaatgagagcagGAACATGTAGAGGGGTACCTTGAATTATCAGCAAAGACGAAGGCATACTTCGCCACTGCTGTTGCTATGTGGGATGCAGATTTCTATGTCAAAGTAGATG
















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|116459773|gb|EG502365.1|EG502365
EST:     ATAGAGCGATTCAG-CTGAAGAAAGTAAACATGGAGACTTCTTGAGGCTG                         GATCATGTTGA
genomic: ATAGAGCGATTCAGGCTGAAGAAAGTAAACATGGAGACTTCTTGAGGCTGgtaagacttg ... gtttgagcagGATCATGTTGA
EST: gi|116459771|gb|EG502363.1|EG502363
EST:     ATAGAGCGATTCAGGCTGAAGAAAGTAAACATGGAGACTTCTTGAGGCTG                         GATCATGTTGAAGGTTATCTCGAGCTGTCAGCAAAGACTAAAACTTACTTT
genomic: ATAGAGCGATTCAGGCTGAAGAAAGTAAACATGGAGACTTCTTGAGGCTGgtaagacttg ... gtttgagcagGATCATGTTGAAGGTTATCTCGAGCTGTCAGCAAAGACTAAAACTTACTTT
EST: gi|125313797|gb|EL327882.1|EL327882
EST:     ATAGAGCGATTCAGGCTGAAGAAAGTAAACATGGAGACTTCTTGAGGCTG                         GATCATGTTGAAGGTTATC
genomic: ATAGAGCGATTCAGGCTGAAGAAAGTAAACATGGAGACTTCTTGAGGCTGgtaagacttg ... gtttgagcagGATCATGTTGAAGGTTATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattttaccgatattcaggctttctgtttttaaattcttatgtttgtttgagcagGATCATGTTGAAGGTTATCTCGAGCTGTCAGCAAAGACTAAAACTTACTTTACCACGGCTTTTGCAATGTGGGATGCAGACTTCTACGTCAAAGTCGATG
                                          tttgttt  CT-rich tract
                          tttttaaattcttatg  TA-rich tract