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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtaattattcaatatttgaatgatcttttgtattcatattcttggtggtgaaaatcgctagtggggtctgtctcttacttttcgcttgggtgtgtagCTAAACAAGAAGTATGATCCTGAGGATAAGAACCATATCGTTCGCATATACGACTACTTCTTACATCAAAGTCATTTGTGCATATGCTTTGAACTTCTAG

Basic information

species Arabidopsis thaliana
transcript AT5G35980.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G35980.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA16G18110.1 (Glycine max), 3'ss of exon 5
gtatgtaattattcaatatttgaatgatcttttgtattcatattcttggtggtgaaaatcgctagtggggtctgtctcttacttttcgcttgggtgtgtagCTAAACAAGAAGTATGATCCTGAGGATAAGAACCATATCGTTCGCATATACGACTACTTCTTACATCAAAGTCATTTGTGCATATGCTTTGAACTTCTAG
    ||||        | ||   || |   |   | || || |||||||  ||  |  |    | |      ||| |  || ||||  | ||       || |||| |||||||||||||||||||||||| | || || ||||| ||||| || || ||  || ||||| | ||||||||||| ||||||||| | || |
----gtaacctcctgttgttattattaagatgcttgtt-attttcttggaagtcca--tgagaaattactcatgtatactatttttatcctg------cagTTAAATAAGAAGTATGATCCTGAGGATAAGCATCACATTGTTCGTATATATGATTATTTTGTATATCAACGACATTTGTGCATTTGCTTTGAATTGCTGG

upper sequence: AT5G35980.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv16s0039g00610.t01 (Vitis vinifera), 3'ss of exon 2
----------------------gtatgtaat-tattcaat--atttgaatgatcttttgtattcatatt---cttggtgg--tgaaaatcgctagtggggtctgtctcttacttttcg--------cttgggtg-----tgtagCTAAACAAGAAGTATGATCCTGAGGATAAGAACCATATCGTTCGCATATACGACTACTTCTTACATCAAAGTCATTTGTGCATATGCTTTGAACTTCTAG
                      | || |     || || |  |||| | ||||   || | |||  |||    ||||||   ||||| |  | |  |   | |   | || |||||||        | ||| ||     || || |||| |||||||||||||| ||||||||||| || || ||||| || || || |||||  | |||||  |||||||||||||    |||||  | || |
gtgaggaaattcttcttgagttggatctcccacatgcagtgtattttagtgattcctttttttcccattatctttggtgtattgaaatttaccaa-gttcttttcttttttcttttcgtgttctttcctggttgctatttgcagTTAAATAAGAAGTATGATCCCGAGGATAAGAATCACATTGTTCGTATCTATGATTACTTTGTTCATCAGCGTCATTTGTGCATTGCTTTTGAGTTGCTTG
















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|86064112|gb|DR359869.1|DR359869
EST:     AGCTTGCATACTATCAGCAGGCATTGGTTGAAGTATCTATTTTGACAACG                         CTAAACAAGAAGTATGATCCTGAGGATAAGAACCATATCGTTCGCATATAC
genomic: AGCTTGCATACTATCAGCAGGCATTGGTTGAAGTATCTATTTTGACAACGgtatgtaatt ... gggtgtgtagCTAAACAAGAAGTATGATCCTGAGGATAAGAACCATATCGTTCGCATATAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtggtgaaaatcgctagtggggtctgtctcttacttttcgcttgggtgtgtagCTAAACAAGAAGTATGATCCTGAGGATAAGAACCATATCGTTCGCATATACGACTACTTCTTACATCAAAGTCATTTGTGCATATGCTTTGAACTTCTAG
                             ctcttac  putative branch site (score: 3)
                                ttactttt  TA-rich tract