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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtaatagctgtatagctacttgggcataaatcaggacatataacaaatggaaaccaagattgtataagctgtttacattatttgactattcttatcctgcttttattaaatcttgcagAACGATCTGAAAGAGCTTTGGTCACTATTGAACCTTCTCCTTCCTGATGTCTTTGACAATCGAAAAGCATTTCATGATTGGTTTGCGCAACCCTTTCAAA

Basic information

species Arabidopsis thaliana
transcript AT2G46020.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G46020.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv15s0046g02290.t01 (Vitis vinifera), 3'ss of exon 9
gttggtaatagctgtatagctacttgggcataaatcaggacatataacaaatggaaaccaagattgtataagctgtttacattatttgactattcttatcctgcttttattaaa-tcttgcagAACGATCTGAAAGAGCTTTGGTCACTATTGAACCTTCTCCTTCCTGATGTCTTTGACAATCGAAAAGCATTTCATGATTGGTTTGCGCAACCCTTTCAAA
                      | | || ||| | | ||  |  |   || |   |       |  | ||      ||   || ||    |    |||   ||   | |||    | |||||||| || |||||||| || ||||| ||  | || || || |||||||| || ||||||||||||||||| ||||||||||||||| || |||| |||||||
----------------------cataggaatagaactggctac-tggaaattttcattttttgtgctctatttcagtttgttttttgagttgaggttaaaatggactgatttttcttttgcagAATGACCTGAAAGAACTCTGGTCGCTTCTAAATCTGCTTCTTCCTGAAGTGTTTGACAATCGAAAAGCTTTTCATGATTGGTTTTCGAAACCTTTTCAAA

upper sequence: AT2G46020.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: EFJ33371 (Selaginella moellendorffii), 3'ss of exon 5
gttggtaatagctgtatagctacttgggcataaatcaggacatataacaaatggaaaccaagattgtataagctgtttacattatttgactattcttatcctgcttttattaaatcttgcagAACGATCTGAAAGAGCTTTGGTCACTATTGAACCTTCTCCTTCCTGATGTCTTTGACAATCGAAAAGCATTTCATGATTGGTTTGCGCAACCCTTTCAAA
                                                           ||||  ||||  ||| |||| | ||| | | || |    |  |  ||||  |   | |  |||||||||||  | ||||| |||||||| || || || ||||||||||| |||||||||||  | ||||| ||||| || |||||  |  | || || ||||
---------------------------------------------------------gtaaga--gtattggct-tttatactatctaaatacttaagttatttttttggttg-tatgtcagAACGATCTACATGAGCTGTGGTCACTTTTAAATCTACTCCTTCCTGAAGTCTTTGACAACAGTAAAGCTTTTCACGACTGGTTCTCAAAGCCATTCCAAA
















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|124787529|gb|EH877208.1|EH877208
EST:     ATCGCTGCCAGAGGAGATTACTTCTCACTGGAACACCTTTGCAG                         AACGATCTGAAAGAGCTTTGGTCACTATTGAACCTTCTCCTTCCTGATGTC
genomic: ATCGCTGCCAGAGGAGATTACTTCTCACTGGAACACCTTTGCAGgttggtaata ... aatcttgcagAACGATCTGAAAGAGCTTTGGTCACTATTGAACCTTCTCCTTCCTGATGTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataagctgtttacattatttgactattcttatcctgcttttattaaatcttgcagAACGATCTGAAAGAGCTTTGGTCACTATTGAACCTTCTCCTTCCTGATGTCTTTGACAATCGAAAAGCATTTCATGATTGGTTTGCGCAACCCTTTCAAA
                atttgac  putative branch site (score: 4)
                                     ttttattaaatctt  TA-rich tract