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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaaaccatgcgttaactaaatcatacttgttacatactaggtgtaaaattttcgtgtggatttccctgaccccagttgttatacagGATTTTACCGACGAGAAGCCAATGGCTTGGAGTCACTTTAATGCTGAAGGTGATGTTGAATTCAAGGCTGTGTTGTATGTTCCTCCGAAAGCTCCCCATG

Basic information

species Arabidopsis thaliana
transcript AT4G24190.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G24190.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 9
------------------------gtgaaaaccatgcgttaactaaatcatacttgttacatactaggtgtaaaattttcgt---gtggatttccctgaccccagttgttatacagGATTTTACCGACGAGAAGCCAATGGCTTGGAGTCACTTTAATGCTGAAGGTGATGTTGAATTCAAGGCTGTGTTGTATGTTCCTCCGAAAGCTCCCCATG
                         | | |        |   || | |  |  || |  | | | | || | |   ||||     || |  |  | |        |||||  |||||||||||  || ||||||||  |  | ||||||||||| |  |||||||||||||| || ||||||||||| |||| ||| ||||| || ||||| || |
gcaaattccaattcccttggtttcattacatttcaaaatactctgattgttttttttggcttcccaagtatcactctttccatcagttggataacatattttatcttgttcaacagGATTTTAGTGAAGAGAAGCCTCTATCATGGAGTCACTTCACCGCTGAAGGTGATGTGGAGTTCAAGGCTGTTTTGTTTGTGCCTCCTAAGGCTCCTCAGG

upper sequence: AT4G24190.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: EFJ17496 (Selaginella moellendorffii), 3'ss of exon 10
gtgaaaaccatgcgttaactaaatcatacttgttacatactaggtgtaaaattttcgtgtggatttccctgaccccagttg--ttatacagGATTTTACCGACGAGAAGCCAATGGCTTGGAGTCACTTTAATGCTGAAGGTGATGTTGAATTCAAGGCTGTGTTGTATGTTCCTCCGAAAGCTCCCCATG
                                        |  |  | |  |  | | |   || |     |    |  ||  || | ||||||| || |  ||| ||||||||| | |||||||| ||   ||| ||||| ||||| || ||||||||||||||||   |||||||||| ||||| ||||
---------------------------------------gtgagc-tgatgtgattg-gcaaatgttgtcaattttacgtgcattgttcagGATTATAACCCCGACAAGCCAATGTCCTGGAGTCATTTCTCTGCGGAAGGAGATGTCGAGTTCAAGGCTGTGTTGTTCATTCCTCCGAAGGCTCCGCATG
















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|124904062|gb|EH978142.1|EH978142
EST:     AGGAGGTGACAGAGGAAGAGTACACTAAATTCTACCACTCTCTCTCAAAG                         GATTTTACCGACGAGAAGCCAATGGCTTGGAGTCACTTTAATGCTGAAGGT
genomic: AGGAGGTGACAGAGGAAGAGTACACTAAATTCTACCACTCTCTCTCAAAGgtgaaaacca ... tgttatacagGATTTTACCGACGAGAAGCCAATGGCTTGGAGTCACTTTAATGCTGAAGGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatactaggtgtaaaattttcgtgtggatttccctgaccccagttgttatacagGATTTTACCGACGAGAAGCCAATGGCTTGGAGTCACTTTAATGCTGAAGGTGATGTTGAATTCAAGGCTGTGTTGTATGTTCCTCCGAAAGCTCCCCATG
                                ccctgac  putative branch site (score: 3)
          tgtaaaatttt  TA-rich tract