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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttattagttatatataagcagtttttcctctttcttcgaaacctgtctatgtttctatgctattccttcattctctgacgccttaaggggcttttaataagGAATGCAATCCAAGACTATCTACTTTTGGCTTGATGAAGAATAGTCGGGATGGAAAAAGTTACAGCACTAATCTTGCTTTCACCCCTCCTGAATATCTAC

Basic information

species Arabidopsis thaliana
transcript AT4G00710.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G00710.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv15s0046g02900.t01 (Vitis vinifera), 3'ss of exon 5
gtatttattagttatatataagcagtttttcctctttcttcgaaacctgtctatgtttctatgctattccttcattctctgacgccttaaggggcttttaataagGAATGCAATCCAAGACTATCTACTTTTGGCTTGATGAAGAATAGTCGGGATGGAAAAAGTTACAGCACTAATCTTGCTTTCACCCCTCCTGAATATCTAC
              || |||     |  ||||  |   || | || |  | |   ||  ||   | |   | |||||    |    |  |   |  |||   | |||  | ||||| ||||| |||   |||||| ||||||| |||||| |||||||||||||||| || || ||||| || || || |||||||| ||| |  
-------------gtaaatattttttcattcccttaaatttggaatcctttttgcttgttagattctatatgcattcctctatttatgtactagaattttgca-gGATGGTAATCCTAGACTCTCTTGCTTTGGCCTGATGAAAAATAGTAGGGATGGAAAAAGTTATAGTACGAATCTGGCGTTTACTCCTCCTGAGTATTTGA
















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|47831461|gb|CK121145.1|CK121145
EST:     GCCGTACTCTTTACCACGACCTCAATGCTTACCGGGTTTTGTTTGATGAG                         GAATGCAATCCAAGACTATCTACTTTTGGCTTGATGAAGAATAGTCGGGAT
genomic: GCCGTACTCTTTACCACGACCTCAATGCTTACCGGGTTTTGTTTGATGAGgtatttatta ... ttttaataagGAATGCAATCCAAGACTATCTACTTTTGGCTTGATGAAGAATAGTCGGGAT
EST: gi|47831462|gb|CK121146.1|CK121146
EST:     GCCGTACTCTTTACCACGACCTCAATGCTTACCGGGTTTTGTTTGATGAG                         GAATGCAATCCAAGACTATCTACTTTTGGCTTGATGAAGAATAGTCGGGAT
genomic: GCCGTACTCTTTACCACGACCTCAATGCTTACCGGGTTTTGTTTGATGAGgtatttatta ... ttttaataagGAATGCAATCCAAGACTATCTACTTTTGGCTTGATGAAGAATAGTCGGGAT
EST: gi|164186839|gb|ES008889.1|ES008889
EST:     TTACCACGACCTCAATGCTTACCGGGTTTTGTTTGATGAG                         GAATGCAATCCAAGACTATCTACTTTTGGCTTGATGAAGAATAGTCGGGAT
genomic: TTACCACGACCTCAATGCTTACCGGGTTTTGTTTGATGAGgtatttatta ... ttttaataagGAATGCAATCCAAGACTATCTACTTTTGGCTTGATGAAGAATAGTCGGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatgtttctatgctattccttcattctctgacgccttaaggggcttttaataagGAATGCAATCCAAGACTATCTACTTTTGGCTTGATGAAGAATAGTCGGGATGGAAAAAGTTACAGCACTAATCTTGCTTTCACCCCTCCTGAATATCTAC
                          ctctgac  putative branch site (score: 3)
                                            ctttt  putative PPT
                                             ttttaataa  TA-rich tract