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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacgcgattccgtgctctatttcacccattttcattgttttatcatcaactgatggatgttgtattaatgtattctgcaatccagAGCATAAGCTATTTGTTGGTATGCTTCCAAAGAATGTCTCTGAAGCTGAAGTTCAATCTTTATTCTCCAAGTACGGGACCATAAAGGATCTACAGATTCT

Basic information

species Arabidopsis thaliana
transcript AT4G03110.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G03110.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv07s0104g01150.t01 (Vitis vinifera), 3'ss of exon 3
----------------------------------------------------------------------------------------gtaacgc-gattccgtgctctatttcacccattttcattgttttatcatcaact--gatggatgttgtattaatgtattctgcaatccagAGCATAAGCTATTTGTTGGTATGCTTCCAAAGAATGTCTCTGAAGCTGAAGTTCAATCTTTATTCTCCAAGTACGGGACCATAAAGGATCTACAGATTCT
                                                                                         ||| || | ||  ||     || ||       |  ||| |  | | ||  | |   ||  ||    | ||    |    ||| |||||||||| || || ||||||||||||||||| |||||||| |||||||||||||||   |||||||| || || || || || ||||| ||  |||| |||||
gtgtaatatattttcattgtttaattacatatttcatccttaatcttgttcctttttggatgtagcagcgccagttcttattctttatctaatgctgcttttgtaaatgatgtccttgtgctatattatagttttatatatttcaataaataactttttgccat-ccttgctatccagAGCACAAACTTTTTGTTGGTATGCTTCCGAAGAATGTTTCTGAAGCTGAAGTTTCTTCTTTATTTTCTAAATATGGAACTATAAAAGACTTACAAATTCT
















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|125188501|gb|EL203455.1|EL203455
EST:     TAACAGTCTATTGCAAGTAAAGTATGCAGATGGCGAATTAGAAAGGCTAG                         AGCATAAGCTATTTGTTGGTATGCTTCCAAAGAATGT
genomic: TAACAGTCTATTGCAAGTAAAGTATGCAGATGGCGAATTAGAAAGGCTAGgtaacgcgat ... tgcaatccagAGCATAAGCTATTTGTTGGTATGCTTCCAAAGAATGT
EST: gi|47827965|gb|CK117649.1|CK117649
EST:     TAACAGTCTATTGCAAGTAAAGTATGCAGATGGCGAATTAGAAAGGCTAG                         AGCATAAGCTATTTGTTGGTATGCTTCCAAAGAATGTCTCTGAAGCTGAAG
genomic: TAACAGTCTATTGCAAGTAAAGTATGCAGATGGCGAATTAGAAAGGCTAGgtaacgcgat ... tgcaatccagAGCATAAGCTATTTGTTGGTATGCTTCCAAAGAATGTCTCTGAAGCTGAAG
EST: gi|125284953|gb|EL299038.1|EL299038
EST:     TAGAAAGGCTAG                         AGCATAAGCTATTTGTTGGTATGCTTCCAAAGAATGTCTCTG
genomic: TAGAAAGGCTAGgtaacgcgat ... tgcaatccagAGCATAAGCTATTTGTTGGTATGCTTCCAAAGAATGTCTCTG
EST: gi|125041186|gb|EL113455.1|EL113455
EST:     TAAAGTATGCAGATGGCGAATTAGAAAGGCTAG                         AGCATAAGCTATTTGTTGGTATGCTTCCAAAGAATGTCTCTGAAGCTGAAG
genomic: TAAAGTATGCAGATGGCGAATTAGAAAGGCTAGgtaacgcgat ... tgcaatccagAGCATAAGCTATTTGTTGGTATGCTTCCAAAGAATGTCTCTGAAGCTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcattgttttatcatcaactgatggatgttgtattaatgtattctgcaatccagAGCATAAGCTATTTGTTGGTATGCTTCCAAAGAATGTCTCTGAAGCTGAAGTTCAATCTTTATTCTCCAAGTACGGGACCATAAAGGATCTACAGATTCT
                                tattaat  putative branch site (score: 2)
                             ttgtattaatgtatt  TA-rich tract