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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgcgttttcgttcttgtaatgaaacatttcctctgataatatatttcccctactgatcgacatgaacggcaacaagtttagGCTGGACTTCAGCTACAGTTCCAACAATTGGGGTGTTGGGCTTCCTCCAAAAGGGAAAAACGAACACAACTGGCCACT

Basic information

species Arabidopsis thaliana
transcript AT5G04360.1
intron # 23
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G04360.1 (Arabidopsis thaliana), 3'ss of exon 23
lower sequence: GLYMA10G34080.1 (Glycine max), 3'ss of exon 23
-----------------------------------------------------------------------------------------------------------gtttgcgttttcgttcttgtaatgaaacatt----tcctctgataatatatt----tcccctactgatcgacatgaacggcaacaagtttagGCTGGACTTCAGCTACAGTTCCAACAATTGGGGTGTTGGGCTTCCTCCAAAAGGGAAAAACGAACACAACTGGCCACT
                                                                                                            ||| | |  | || |    ||  |||   |    |  ||   | |  || |        | |    |   | ||  |     ||| || || || |||||||  |||| |   || ||||||||||| || ||||||||| ||| |||||| ||| | |||||||||||
gtattttctatatataataatcatttttactgttttgactttgccaaattagtatatcatctacttcattataatgttctaatagttatattcattcaaatcctgttattttcctccttgtaccaaaaaaaaaatcctgttattttccattgacttagtgaaacttacaatgtgtttccttgtgcactctcaatttcagACTTGACTTCACATACAATAGTAATAATTGGGGTGTAGGACTTCCTCCACAAGAGAAAAATGAAAAGAACTGGCCACT

upper sequence: AT5G04360.1 (Arabidopsis thaliana), 3'ss of exon 23
lower sequence: Vv13s0019g05160.t01 (Vitis vinifera), 3'ss of exon 23
---gtttgcgttttcgttct-tgtaatgaaa----------catttcctctga--taatatatttcccctactgatcgacatgaacggcaacaagtttagGCTGGACTTCAGCTACAGTTCCAACAATTGGGGTGTTGGGCTTCCTCCAAAAGGGAAAAACGAACACAACTGGCCACT
    | |  |     ||| | ||  | ||||           ||    ||||   ||  |  |||  |||       ||  |        |    |  ||||| ||||||||||||| ||| ||||| ||||||||||| ||||| ||||||| |||||||||  | || ||||||||
gacatctctgcccctgttatctgatacgaaagagacttcactatcagttctggcgtatcacgttttacctcaaatgtgatgttgtatcttattgttgcagGCTAGACTTCAGCTACAATTCTAACAACTGGGGTGTTGGCCTTCCACCAAAAGAGAAAAACGAGAAGAATTGGCCACT
















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|125129727|gb|EL173338.1|EL173338
EST:     TCGAAATCACTTGATCGAGATTCTTACAACTCCGGTGACTGGTTCAATAG                         GCTGGACTTCAGCTACAGTTCCAACAATTGGGGTGTTGGGCTTCCTCC
genomic: TCGAAATCACTTGATCGAGATTCTTACAACTCCGGTGACTGGTTCAATAGgtttgcgttt ... acaagtttagGCTGGACTTCAGCTACAGTTCCAACAATTGGGGTGTTGGGCTTCCTCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcctctgataatatatttcccctactgatcgacatgaacggcaacaagtttagGCTGGACTTCAGCTACAGTTCCAACAATTGGGGTGTTGGGCTTCCTCCAAAAGGGAAAAACGAACACAACTGGCCACT
                        tactgat  putative branch site (score: 2)
     tctgataatatattt  TA-rich tract