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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgaaacttttcattgcttacacattacatgtaacgtttagagccaaaaactcaagactgctatatactgtgcagGAACTATTGGAGAGATCAAGATACTGCTCTTTTCATAATTAAACACTTGTATCGCGAGTTACCAGACGGACCAAACTCGCCCACGGAATCCACCGAAGGA

Basic information

species Arabidopsis thaliana
transcript AT1G31480.1
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G31480.1 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: GRMZM2G318860_T01 (Zea mays), 3'ss of exon 20
----gtaagtgaaacttttc--attgcttacacattacatgtaacgtttagagccaaaaactcaa--gactgctatatactgtgcagGAACTATTGGAGAGATCAAGATACTGCTCTTTTCATAATTAAACACTTGTATCGCGAGTTACCAGACGGACCAAACTCGCCCACGGAATCCACCGAAGGA------
    ||   | |  ||||||   ||| ||  ||  ||| |||     |     |  | |  |  |  | |   |  ||    || || ||||||||| ||||||| ||||||||||| |||||  | ||||| |||||||| ||  |||| || |      |  | || |  ||   ||  ||| |       
gtgagtttataagccttttcctgttgatttaactatacctgttcaaatcgcttctcagattttcactggcctgtggatgtcctgtagCAACTATTGGCGAGATCATGATACTGCTCTCTTCATTCTCAAACATTTGTATCGTGATATACCCGAGG------ATCCTCCAAGCGATGTCATTGAAAGGATGCCT

upper sequence: AT1G31480.1 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: GLYMA09G36920.1 (Glycine max), 3'ss of exon 21
----------------gtaagtgaaacttttc---attgct-tacacattacatgtaacgtttagagccaaaa-actcaagactgctatatactgtgcagGAACTATTGGAGAGATCAAGATACTGCTCTTTTCATAATTAAACACTTGTATCGCGAGTTACCAGACGGACCAAACTCGCCCACGGAATCCACCGAAGGA
                 | |||||    |  |   |||||  |  |  | || | | |  ||||   |        | ||   |  ||| |  |   ||| ||||||||| | ||| | |||||||||||||||||| | |||||||||||| | ||  ||||||| |   |  | | |      | ||  || |  |  
tatttttattaccataatgagtgatttctgactgaattgccattgatttcacgttttatttttatgactgccgtgtttaatctttttatttggttgacagAAACTATTGGCGGGATTATGATACTGCTCTTTTCATATTGAAACACTTGTATGGAGAAATACCAGAAGATTCTGATTTGTTGGTTGGATTTACTGGGGAC
















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|222358058|gb|GH718139.1|GH718139
EST:     GAGAAAACCTTTGAGCATCCGTATCTACAAGCAATAGGAGCTCATAC                         GAACTATTGGAGAGATCAAGATACTGCTCTTTTCATAATTAAACACTTGTA
genomic: GAGAAAACCTTTGAGCATCCGTATCTACAAGCAATAGGAGCTCATACgtaagtgaaa ... tactgtgcagGAACTATTGGAGAGATCAAGATACTGCTCTTTTCATAATTAAACACTTGTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacattacatgtaacgtttagagccaaaaactcaagactgctatatactgtgcagGAACTATTGGAGAGATCAAGATACTGCTCTTTTCATAATTAAACACTTGTATCGCGAGTTACCAGACGGACCAAACTCGCCCACGGAATCCACCGAAGGA
        atgtaac  putative branch site (score: 3)
                                         tatatact  TA-rich tract