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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgctttctttgtgatattcgtgttttagtaatcgatcattttgtttggtctccaccactttggtttgtattttcggatttggttttaatctgtgttttatgttccagCGTTTCGCTGCTGTAATCATGAGGATCAGAGAGCCAAAGACCACAGCGTTAATTTTTGCTTCTGGGAAAATG

Basic information

species Arabidopsis thaliana
transcript AT1G55520.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G55520.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv06s0004g00180.t01 (Vitis vinifera), 3'ss of exon 3
gttttgctttctttgtgatattcgtgttttagtaatcgatcattttgtttggtctccaccactttggtttgtattttcggatttggttttaatctgtgttttatgttccagCGTTTCGCTGCTGTAATCATGAGGATCAGAGAGCCAAAGACCACAGCGTTAATTTTTGCTTCTGGGAAAATG
         ||    |  ||  | ||||    || | ||  | ||| |||  | |||     | | |   || ||||   || |  ||| ||| | || | | |  | |||||||| ||||| |||||||||||||| || || ||||| ||||| || || || ||||||||||| || |||
-------gatcaacatcttaaccttgttcc--tattggaggaattttttttctttccctatttgttgccagtttttttt-atgtattttaaatttatgatgt-tcctgcagCGTTTTGCTGCCGTAATCATGAGGATAAGGGACCCAAAAACCACGGCTTTGATATTTGCTTCTGGAAAGATG
















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|19874591|gb|AU235422.1|AU235422
EST:     ATCTTAAAGCCATAGCTTTGCAAGCTAGGAATGCTGAATATAACCCCAAG                         CGTTTCGCTGCTGTAATCATGAGGATCAGAGAGCCAAAGACCACAGCGTTA
genomic: ATCTTAAAGCCATAGCTTTGCAAGCTAGGAATGCTGAATATAACCCCAAGgttttgcttt ... tatgttccagCGTTTCGCTGCTGTAATCATGAGGATCAGAGAGCCAAAGACCACAGCGTTA
EST: gi|47831853|gb|CK121537.1|CK121537
EST:     ATCTTAAAGCCATAGCTTTGCAAGCTAGGAATGCTGAATATAACCCCAAG                         CGTTTCGCTGCTGTAATCATGAGGATCAGAGAGCCAAAGACCACAGCGTTA
genomic: ATCTTAAAGCCATAGCTTTGCAAGCTAGGAATGCTGAATATAACCCCAAGgttttgcttt ... tatgttccagCGTTTCGCTGCTGTAATCATGAGGATCAGAGAGCCAAAGACCACAGCGTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caccactttggtttgtattttcggatttggttttaatctgtgttttatgttccagCGTTTCGCTGCTGTAATCATGAGGATCAGAGAGCCAAAGACCACAGCGTTAATTTTTGCTTCTGGGAAAATG
                              ttttaat  putative branch site (score: 3)
           tttgtatttt  TA-rich tract