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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtatttctaaaccaagtactcttaattgttacagtggttctctctggcttctttggaccatacactgttcaatgaaggagtgaaatgttgtttttcaactgacttgtttgtttgccgtctgaagCTCGAGGCATGTGCGCATCCGTTTTTCAATGAACTCCGTGAGCCAAATGCTCGTCTTCCAAATGGCCGACCTCTACCACCGTTGTTCAACTTCAAACAAG

Basic information

species Arabidopsis thaliana
transcript AT2G30980.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G30980.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv12s0028g01810.t01 (Vitis vinifera), 3'ss of exon 10
gttggtatttctaaaccaagtactcttaattgttacagtggttctctctggcttctttggaccatacactgttcaatgaaggagtgaaatgttgtttttcaactgacttgtttgtttgccgtctgaagCTCGAGGCATGTGCGCATCCGTTTTTCAATGAACTCCGTGAGCCAAATGCTCGTCTTCCAAATGGCCGACCTCTACCACCGTTGTTCAACTTCAAACAAG--
                                                                                                                                            || ||| | || ||  | || ||| | || || ||||| || |||||||||||||| ||| |||| ||| |||||||||| ||||| |  
-------------------------------------------------------------nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngctcattctttctttgacgagCTCAGGGAACCTAATGCCCGCCTTCCAAATGGCCGCCCTTTACCCCCGCTGTTCAACTTTAAACAGGAA
















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|86079984|gb|DR375741.1|DR375741
EST:     ACCTTGCATCTCGGCTTCTTCAATACTCACCAAGTCTACGTTGCACTGCG                         CTCGAGGCATGTGCGCATCCGTTTTTCAATGAACTCCGTGAGCCAAATGCT
genomic: ACCTTGCATCTCGGCTTCTTCAATACTCACCAAGTCTACGTTGCACTGCGgttggtattt ... ccgtctgaagCTCGAGGCATGTGCGCATCCGTTTTTCAATGAACTCCGTGAGCCAAATGCT
EST: gi|164110209|gb|ES082290.1|ES082290
EST:     AAGTCTACGTTGCACTGCG                         CTCGAGGCATGTGCGCATCCGTTTTTCAATGAACTCCGTGAGCCAAATGCT
genomic: AAGTCTACGTTGCACTGCGgttggtattt ... ccgtctgaagCTCGAGGCATGTGCGCATCCGTTTTTCAATGAACTCCGTGAGCCAAATGCT
EST: gi|124922133|gb|EL000452.1|EL000452
EST:     ACCTTGCATCTCGGCTTCTTCAATACTCACCAAGTCTACGTTGCACTGCG                         A
genomic: ACCTTGCATCTCGGCTTCTTCAATACTCACCAAGTCTACGTTGCACTGCGgttggtattt ... ccgtctgaag-
EST: gi|124922133|gb|EL000452.1|EL000452
EST:     ACCTTGCATCTCGGCTTCTTCAATACTCACCAAGTCTACGTTGCACTGCG                         A
genomic: ACCTTGCATCTCGGCTTCTTCAATACTCACCAAGTCTACGTTGCACTGCGgttggtattt ... ccgtctgaag-
EST: gi|164073782|gb|ES099618.1|ES099618
EST:     TCTCGGCTTCTTCAATACTCACCAAGTCTACGTTGCACTGCG                         CTCGAGGCATGTGCGCATCCGTTTTTCAATGAACTCCGTGAGCCAAATGCT
genomic: TCTCGGCTTCTTCAATACTCACCAAGTCTACGTTGCACTGCGgttggtattt ... ccgtctgaagCTCGAGGCATGTGCGCATCCGTTTTTCAATGAACTCCGTGAGCCAAATGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatgaaggagtgaaatgttgtttttcaactgacttgtttgtttgccgtctgaagCTCGAGGCATGTGCGCATCCGTTTTTCAATGAACTCCGTGAGCCAAATGCTCGTCTTCCAAATGGCCGACCTCTACCACCGTTGTTCAACTTCAAACAAG
                           aactgac  putative branch site (score: 2)
                  ttgttttt  TA-rich tract