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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcttttaactctatattattgatttcttcaaatgcttatatctaatctaagtttagatagagtagagaagccacaaattgtacaatgcagcaaaatttagagggttaggttgttgtgtggtgggattcttgaaaacgttttttgtttcctttagATTTAGGATTGACCGGGACAAAGCTCGGATGCGGCGAAGGTGGTTGTGGGTCTTGCACCGTGATGGTGTCTAGTTATGACCGAGAGTCAAAGACATGTGT

Basic information

species Arabidopsis thaliana
transcript AT4G34900.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G34900.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA15G03870.1 (Glycine max), 3'ss of exon 1
gtgcttttaactctatattattgatttcttcaaatgcttatatctaatctaagtttagatagagtagagaagccacaaattgtacaatgcagcaaaatttagagggttaggttgttgtgtggtgggattcttgaaaacgttttttgtttcctttagATTTAGGATTGACCGGGACAAAGCTCGGATGCGGCGAAGGTGGTTGTGGGTCTTGCACCGTGATGGTGTCTAGTTATGACCGAGAGTCAAAGACATGTGT
                                               |    ||| |  |   |   ||         ||| | | |    |  ||  | |      ||  || | || |  |     | ||       |||||| | | |   |||| ||||  ||||||||||||| || ||||| || ||||||||||||||  ||||||| || ||||| |||   | |||  ||   |  |||| |||   
-----------------------------------------------ttggtgttcaattttggcc-agtccttttggatttt-ctacatggtgaagctaaa----ctaatttatggttttttccacctttttt---ttttttttttgtacaaaagATATAGGTCTGACCGGGACAAAACTAGGATGTGGGGAAGGTGGTTGTGGAGCTTGCACAGTTATGGTTTCTCAATTTGATAGAAGATTGAAGAAATGCTC

upper sequence: AT4G34900.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv06s0004g02030.t01 (Vitis vinifera), 3'ss of exon 1
gtgcttttaactctatattattgatttcttcaaatgcttatatctaatctaagtttagatagagtagagaagccacaaattgtacaatgcagcaaaatttagagggttaggttgttgtgtggtgggattcttgaaaacgttttttgtttcctttagATTTAGGATTGACCGGGACAAAGCTCGGATGCGGCGAAGGTGGTTGTGGGTCTTGCACCGTGATGGTGTCTAGTTATGACCGAGAGTCAAAGACATGTGT
                                                           | | |||       |     ||||    | |    |  | |      |     ||| ||    |  |||| |      | ||||||| |   |  |||  ||||  |||| ||||||||| | || || |||||||||||||||||| ||||||| |||||||| |||  || |||   | | || |||| ||||||
-------------------------------------------------------ctatttgtgtaactctttctagtgttgttttgttcttttagttcttatttttcttcatgtggtagcatctgattatcatttcccttttttggtaa-taaagACATAGGTCTGACGGGGACAAAGTTGGGCTGTGGCGAAGGTGGTTGTGGGGCTTGCACTGTGATGGTTTCTTATTTTGATGAAAATTCGAAGAAATGTGT
















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|19877239|gb|AU238070.1|AU238070
EST:     AGTTTTGCCTGATGGATTAGCTCACATGACGCTTCTCGAATATCTCAGAG                         ATTTAGGATTGACCGGGACAAAGCTCGGATGCGGCGAAGGTGGTTGTGGGT
genomic: AGTTTTGCCTGATGGATTAGCTCACATGACGCTTCTCGAATATCTCAGAGgtgcttttaa ... tttcctttagATTTAGGATTGACCGGGACAAAGCTCGGATGCGGCGAAGGTGGTTGTGGGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagggttaggttgttgtgtggtgggattcttgaaaacgttttttgtttcctttagATTTAGGATTGACCGGGACAAAGCTCGGATGCGGCGAAGGTGGTTGTGGGTCTTGCACCGTGATGGTGTCTAGTTATGACCGAGAGTCAAAGACATGTGT
                                    cgttttttgtttcctt  CT-rich tract
                                      ttttttgttt  TA-rich tract