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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatctcctaaccatccatcagcgttactcagaaaattctgactgtgacaagatgatcttaacttgataaccacgtgtctctatgcaagGTTTTTGGACTTTGGTTTAGTTTGTCGGATGCAAAGAAAACATCAGCTTGCCATGCTCGCATCAATTGTGCATATCGTAAATGGTGATTGGGCCTGTCTT

Basic information

species Arabidopsis thaliana
transcript AT2G39190.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G39190.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA10G35610.1 (Glycine max), 3'ss of exon 9
gtatctcctaaccatccatcagcgttactcagaaaattctga-----ctgtgacaagatgatcttaa-----cttgataaccacgtgtctctatgcaagGTTTTTGGACTTTGGTTTAGTTTGTCGGATGCAAAGAAAACATCAGCTTGCCATGCTCGCATCAATTGTGCATATCGTAAATGGTGATTGGGCCTGTCTT
|||| || |   | | |   |    | || |  ||||| ||      ||    ||  |  |||| ||      ||   |      ||| | | ||  |||||| |||| ||||||||  | ||||  ||| ||| ||  ||||||||||| ||||| || |||||| | ||||| ||||||||||| ||||| |  |||
gtatttctttttccttccctattcattctgaataaattatggtttcccttcatcacaaaaatctaaaagaattttttcacttctttgtatgtgtgacagGTTTCTGGATTTTGGTTTGCTCTGTCAAATGGAAAAAAGGCATCAGCTTGCTATGCTGGCTTCAATTATTCATATAGTAAATGGTGACTGGGCATCCCTT

upper sequence: AT2G39190.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv13s0019g04130.t01 (Vitis vinifera), 3'ss of exon 9
----------------------------------------gtatctcctaaccatccatcagcgttactca--gaaaattctgactgtgacaagatgatcttaacttgataaccac-----gtgtctctatgcaagGTTTTTGGACTTTGGTTTAGTTTGTCGGATGCAAAGAAAACATCAGCTTGCCATGCTCGCATCAATTGTGCATATCGTAAATGGTGATTGGGCCTGTCTT
                                        || ||||    | |    |     ||  |    |  ||     | || || ||  || |  | ||    | |||       |||  | | | | ||||||||||| || |||||  ||||||||||| |||  || |||||  |||||||||| ||||| || |||||||| |||||||| |||||| | |  |||
gtaaatcatttgattctttttctttattgtacaaaactatgtttctctatgctaaatgtggttattgtttgttgtcaaaatatattg-gaaaatctgtttatgacactctcacctttgctagtgattttgttctagGTTTTTGGATTTCGGTTTGCTTTGTCGGATGGAAAAGAAGCATCAATTTGCCATGCTTGCATCCATAGTGCATATTGTAAATGGGGATTGGCCGTCCCTT
















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|163976686|gb|ES183451.1|ES183451
EST:     GCAGATCCGCATCCTGGAAACCTTCGTTACACAACATCAAGACAAATAGG                         GTTTTTGGACTTTGGTTTAGTTTGTCGGATGACAAAGAAAAC
genomic: GCAGATCCGCATCCTGGAAACCTTCGTTACACAACATCAAGACAAATAGGgtatctccta ... tctatgcaagGTTTTTGGACTTTGGTTTAGTTTGTCGGATG-CAAAGAAAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattctgactgtgacaagatgatcttaacttgataaccacgtgtctctatgcaagGTTTTTGGACTTTGGTTTAGTTTGTCGGATGCAAAGAAAACATCAGCTTGCCATGCTCGCATCAATTGTGCATATCGTAAATGGTGATTGGGCCTGTCTT
                              tgataac  putative branch site (score: 2)
                                         tgtctct  putative PPT
                     atcttaa  TA-rich tract