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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtcacaatctccttcttactccaaagtatcaaactttaagatgggtttgtgatatcgttgacttttttaacttgtgattacagTCTTTGGTTATGAACCACATTCGGTGCTACCGATTGGAGTTGTTGCTCTTTGTGATCTCACAGGGTTTATGCCTATTCCTAACATTAAAGTTCTTGCAAG

Basic information

species Arabidopsis thaliana
transcript AT3G51520.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G51520.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA09G32790.1 (Glycine max), 3'ss of exon 3
--------------------gttagtcacaatctccttcttactccaaagtatcaaactttaagatgggtttgtgatatcgttgacttttttaacttgtgattacagTCTTTGGTTATGAACCACATTCGGTGCTACCGATTGGAGTTGTTGCTCTTTGTGATCTCACAGGGTTTATGCCTATTCCTAACATTAAAGTTCTTGCAAG
                      | || |      |  | ||| |     ||||   | | | || | | |     ||||     ||  | |   ||| | ||  |||| |||||||||||||||||||| ||  | || ||||||||||||||  |   |||   |||||| ||||||||| ||||||| || ||||||||||| ||
tttaagctaacatctctctctatggtgatggctcctattttattt----gtattttattgttag-tagttcatcaatattaacaacagtat-gtcttttcat-gcagTTTTTGGTTATGAACCACATTCAGTTTTGCCAATTGGAGTTGTTGCGTTAGCTGACAACACAGGTTTTATGCCTCTTCCTAAAATAAAAGTTCTTGCTAG

upper sequence: AT3G51520.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA16G21960.2 (Glycine max), 3'ss of exon 3
gttagtcacaatctccttcttactccaaagtatcaaac---tttaagatgggtttg-----tgata--tcgttgacttttttaac-------ttgtgattacagTCTTTGGTTATGAACCACATTCGGTGCTACCGATTGGAGTTGTTGCTCTTTGTGATCTCACAGGGTTTATGCCTATTCCTAACATTAAAGTTCTTGCAAG
      || |||    |  ||  |   |    | ||||   ||||||     |||      |  ||  || |  |  ||   |||        | |   | |||| |||||||||||||||||||| ||  | || ||||||||||||||  |   |||   |||| | ||||||||| ||||||| || ||||||||||| ||
----aacaaaattcggtcttttattagagaccttaaacatatttaagccaaatttaattgttagtagttcatgaaaattaacaacagtatgtcttttcgtgcagTTTTTGGTTATGAACCACATTCAGTTTTGCCAATTGGAGTTGTTGCATTAGCTGACAACACATGTTTTATGCCTCTTCCTAAAATAAAAGTTCTTGCTAG
















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|125303005|gb|EL317090.1|EL317090
EST:     TCGTGCCTATG                         TCTTTGGTTATGAACCACATTCGGTGCTACCGATTGGAGTTGTTGCTCTTT
genomic: TCGTGCCTATGgttagtcaca ... gtgattacagTCTTTGGTTATGAACCACATTCGGTGCTACCGATTGGAGTTGTTGCTCTTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaaactttaagatgggtttgtgatatcgttgacttttttaacttgtgattacagTCTTTGGTTATGAACCACATTCGGTGCTACCGATTGGAGTTGTTGCTCTTTGTGATCTCACAGGGTTTATGCCTATTCCTAACATTAAAGTTCTTGCAAG
                                    ttttaac  putative branch site (score: 2)
                                  ttttttaactt  TA-rich tract