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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaagatactgacttctctgtataaaaaggctaggggacgacagaaaacaaactgattgttaaatttgttagGTATTCAACGAGTTCAATGCACGGAAGCCAGATGAAATAAACATTTTCCGAGGAGTTCTCAGGAATCACCTTTTTGTGGGCATCATCTCTATCACCATTG

Basic information

species Arabidopsis thaliana
transcript AT4G29900.1
intron # 31
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G29900.1 (Arabidopsis thaliana), 3'ss of exon 31
lower sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 32
---------------------------gtaaaagatactgacttctctgtataaaaaggctaggggacgacagaaaacaaactgattgttaaatttgt-tagGTATTCAACGAGTTCAATGCACGGAAGCCAGATGAAATAAACATTTTCCGAGGAGTTCTCAGGAATCACCTTTTTGTGGGCATCATCTCTATCACCATTG
                             |  |    || |  | |||  ||     ||  |    ||  ||     | |    |     |  |   |  || ||||||| ||||| |||||||||||||| |||||||| ||  | |||  ||||||    |  || |  |||||| | || ||  |    || ||  | |
tactggaataataaggtatcctatttgagatcaagagctaatctatcttgattttggggtcaaa--actgcaaccgcctagtataacacaagttcaatgcagATATTCAATGAGTTTAATGCACGGAAGCCGGATGAAATTAATGTATTCAAAGGAGTCACTACCAACCGTCTTTTTATTGGGATAGTGGGAATAACTCTCG
















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|124892416|gb|EH971318.1|EH971318
EST:     AGAGTGAAGAATACAGTCATCTTCAATGCCTTTGTCATCTGCCAG                         GTATTCAACGAGTTCAATGCACGGAAGCCAGATGAAATA
genomic: AGAGTGAAGAATACAGTCATCTTCAATGCCTTTGTCATCTGCCAGgtaaaagata ... aatttgttagGTATTCAACGAGTTCAATGCACGGAAGCCAGATGAAATA
EST: gi|125316541|gb|EL330626.1|EL330626
EST:     AGTGAAGAATACAGTCATCTTCAATGCCTTTGTCATCTGCCAG                         GTATTCAACGAGTTCAATGCAACGGAAGCCAGATGAAATAAACATTTTCCG
genomic: AGTGAAGAATACAGTCATCTTCAATGCCTTTGTCATCTGCCAGgtaaaagata ... aatttgttagGTATTCAACGAGTTCAATGCA-CGGAAGCCAGATGAAATAAACATTTTCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgtataaaaaggctaggggacgacagaaaacaaactgattgttaaatttgttagGTATTCAACGAGTTCAATGCACGGAAGCCAGATGAAATAAACATTTTCCGAGGAGTTCTCAGGAATCACCTTTTTGTGGGCATCATCTCTATCACCATTG
                                 aactgat  putative branch site (score: 3)
                                      attgttaaatttgtta  TA-rich tract