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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggcatctatgagactacacacctctttgtataattttgattacagttggtcaaactgttgacgtctttcctgttggcagCTATTGCAATCAGTATGTTGACCGAGATGCTCTGATGTACCTCATTTTGGCCAATGAAATCCTGCACGTTCAACATCCAAATATAATAACAATTGCTGAG

Basic information

species Arabidopsis thaliana
transcript AT3G20440.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G20440.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv19s0090g00920.t01 (Vitis vinifera), 3'ss of exon 10
---------------gtaaggcatctatgag-actacacacctctttgt-ataattttgattacagt-tggtcaaactgttgacgtctttcctgttggcagCTATTGCAATCAGTATGTTGACCGAGATGCTCTGATGTACCTCATTTTGGCCAATGAAATCCTGCACGTTCAACATCCAAATATAATAACAATTGCTGAG
               ||    ||  | | |    |   ||||   |  | ||  || || ||| | | |  |  ||    |    | | |  | ||  ||| ||||||||||| |||||||||  ||||||  |||||||||| |||||||| |||||||| || || | ||  ||||| || ||| ||||||||||||| 
attatttttgttcatgtttaacaagtttcattgttttgcaccaaatactcatgtttatgtttagaatatatttgaaacactagtttttattttatta-cagGTATTGCAATCAATATGTTGACAAAGATGCATTGATGTACCTGATTTTGGCAAATGAAATACTACATGCTCTTCATCCTAAAATAGTAACAATTGCTGAA
















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|116407561|gb|EG450153.1|EG450153
EST:     ATGATTTACACGCACAATGGGTTTGCTTCATTTAACAACGATTTGGATGA                         CTATTGCAATCAGTATGTTGACCGAGATGCTCTGATGTACCTCATTTTGGC
genomic: ATGATTTACACGCACAATGGGTTTGCTTCATTTAACAACGATTTGGATGAgtaaggcatc ... ctgttggcagCTATTGCAATCAGTATGTTGACCGAGATGCTCTGATGTACCTCATTTTGGC
EST: gi|116407538|gb|EG450130.1|EG450130
EST:     ATGATTTACACGCACAATGGGTTTGCTTCATTTAACAACGATTTGGATGA                         CTATTGCAATCAGTATGTTGACCGAGATGCTCTGATGTACCTCATTTTGGC
genomic: ATGATTTACACGCACAATGGGTTTGCTTCATTTAACAACGATTTGGATGAgtaaggcatc ... ctgttggcagCTATTGCAATCAGTATGTTGACCGAGATGCTCTGATGTACCTCATTTTGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtataattttgattacagttggtcaaactgttgacgtctttcctgttggcagCTATTGCAATCAGTATGTTGACCGAGATGCTCTGATGTACCTCATTTTGGCCAATGAAATCCTGCACGTTCAACATCCAAATATAATAACAATTGCTGAG
                               tgttgac  putative branch site (score: 3)
                                       tctttcctgtt  CT-rich tract
     ataattttgattaca  TA-rich tract