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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcatattatttaaacatatctattttctattgagtcaatgtttttttggtaattccatcagtatgtcatgtgtttgggtaatgagggtgcacaaattgctacaactgtctacctaagttaaagcttaaaagatatggattcatagactatttttatgcggacatctaactaaagttgttttctttttattgtagTTGAGGAATTTGGTTTGGGCAACTTCTAAGCACGATGTCTACCTTATGTCACAATATTTGGTGAGCCACTATTCTACTTTGACATCCGGAAAGCATGATG

Basic information

species Arabidopsis thaliana
transcript AT1G55680.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G55680.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA04G12500.1 (Glycine max), 3'ss of exon 4
gttcatattatttaaacatatctattttctattgagtcaatgtttttttggtaattccatcagtatgtcatgtgtttgggtaatgagggtgcacaaattgctacaactgtctacctaagt-taaagcttaaaagatatggattcatagactatttttatgcggacatctaactaaagttgttttct---ttttattgtagTTGAGGAATTTGGTTTGGGCAACTTCTAAGCACGATGTCTACCTTATGTCACAATATTTGGTGAGCCACTATTCTACTTTGACATCCGGAAAGCATGATG
                                                                                                 |    |  | | || | |   || ||    ||  |||| || |  || |   ||||| |    | |    || ||  || || |||| |   |  |  || |||||||||||||||| ||||| || || ||||| ||||| |||||||| ||||| | ||   | |  || |  ||  ||||||| | |  ||     || |
-------------------------------------------------------------------------------------------------tcttaagcagtatcaatcattgtataggctttctaagagataggatcttg--ctattgtggc-cagttgactgacataatttattttttaaatgattgtgcagTTGAGGAATTTGGTATGGGCTACATCAAAGCATGATGTATACCTTATTTCACAGTTTTCAATAATGCATTGGTCCTCTTTGACTTGCAAAAGTTCAGAAG
















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|125170651|gb|EL194018.1|EL194018
EST:     TCTTCATTTCCAG                         TTGNGGAATTTGGTTTGGGCAACTTCTAAGCACGATGTCTACCTTATGTCA
genomic: TCTTCATTTCCAGgttcatatta ... tttattgtagTTGAGGAATTTGGTTTGGGCAACTTCTAAGCACGATGTCTACCTTATGTCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatagactatttttatgcggacatctaactaaagttgttttctttttattgtagTTGAGGAATTTGGTTTGGGCAACTTCTAAGCACGATGTCTACCTTATGTCACAATATTTGGTGAGCCACTATTCTACTTTGACATCCGGAAAGCATGATG
                           aactaaa  putative branch site (score: 2)
                                   ttgttttctttttatt  CT-rich tract
                              taaagttgttttcttt  TA-rich tract