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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataccaccacttcttactagtcaacaaccttggtttttgtattaccttttactctcattattgctttggtataaacccatgagtaactttatgcgagggtcttttgcagGGTAGTGGTTCTGCTACGCAAGGTGAAATCTCCTTTATATCGTGGAATAGAAAAGTTCAACAGATATTAGCTTCTACCTCATACAATGGGACTACTG

Basic information

species Arabidopsis thaliana
transcript AT3G63460.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G63460.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA09G36050.2 (Glycine max), 3'ss of exon 3
------------------------gtataccac---cacttcttactagtcaacaaccttggtttttgtattaccttttactctcattattgctttggtataaacccatgagtaactt-tatgcgagggtcttttgcagGGTAGTGGTTCTGCTACGCAAGGTGAAATCTCCTTTATATCGTGGAATAGAAAAGTTCAACAGATATTAGCTTCTACCTCATACAATGGGACTACTG
                        | ||   ||   || ||    ||  |        ||  | | | | | | |||  | | ||  | |   |    ||  ||      | ||  |  | |    |    |  ||||| ||| ||| |||||| | || || ||||| || ||  |||| ||||| || ||||| ||||| |||||||| ||||| |||||||||||||| || |
gtcagagattgttcccttgagtgtgcatgttacagacatttgcccctgctttgatggattaatatgttt-taatcttcaaatatctgtctctgtaaattaataaatttaaaatatttagtgtatatgataatggtgcagAGTACTGGGTCTGCTTCCCAGGGAGAAATTTCATTCTTATCTTGGAACAGTAAAGTCCAACACATATTAGCGTCTACTTCATACAATGGGACCACAG

upper sequence: AT3G63460.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv13s0158g00140.t01 (Vitis vinifera), 3'ss of exon 3
gtataccaccacttcttactagtcaacaaccttggtttttgtattaccttttactctcat-tattgctttggtataaacccatgagtaactttatgcgagggtcttttgcagGGTAGTGGTTCTGCTACGCAAGGTGAAATCTCCTTTATATCGTGGAATAGAAAAGTTCAACAGATATTAGCTTCTACCTCATACAATGGGACTACTG
      ||| ||  |   | | || ||  | |  |||||| | ||   |   | | | || || |  |||  ||| |  | ||  |  | |   ||||||    |  ||||||||||||| |||||||  ||||||||||| || ||  |||| |||||||| || || ||||| |||||||| || || ||||||||||| || ||||
------cac-acaacaagccattctac--cttccgttttttttttctgtgcaaattttatgtactagttt--tatgagtc-atctgacattgcctgcgagatcttgatgcagGGTAGTGGATCTGCTAATCAAGGTGAAATTTCTTTCTTATCTTGGAATAGCAAGGTCCAACATATATTAGCATCCACTTCATACAATGGAACAACTG
















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|116440744|gb|EG483336.1|EG483336
EST:     TTTGGGACTTATTAAAGCCTTCAGAGCCTTCTCATTTTCCACTGCTCAAG                         GGTAGTGGTTCTGCTACGCAAGGTGAAATCTCCTTTATATCGTGGAATAGA
genomic: TTTGGGACTTATTAAAGCCTTCAGAGCCTTCTCATTTTCCACTGCTCAAGgtataccacc ... tcttttgcagGGTAGTGGTTCTGCTACGCAAGGTGAAATCTCCTTTATATCGTGGAATAGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcattattgctttggtataaacccatgagtaactttatgcgagggtcttttgcagGGTAGTGGTTCTGCTACGCAAGGTGAAATCTCCTTTATATCGTGGAATAGAAAAGTTCAACAGATATTAGCTTCTACCTCATACAATGGGACTACTG
                          gagtaac  putative branch site (score: 2)
                                             tcttttgc  putative PPT
                             taactttat  TA-rich tract