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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTCGACTCACAATATGTGAGGGGCATGATGGAACAGAGACATCCAATGGTGATGTACTTATTTTTCCTGATATGATCAGATACAGgtaaggggtgaagtcttcctagttggagatttcttagatttggtttcgttttttctatcaacagttgggacttttttttgacagttttgatttaacaaaaattgcag

Basic information

species Arabidopsis thaliana
transcript AT4G26620.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G26620.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA08G44420.1 (Glycine max), 5'ss of exon 3
ACTCGACTCACAATATGTGAGGGGCATGATGGAACAGAGACATCCAATGGTGATGTACTTATTTTTCCTGATATGATCAGATACAGgtaaggggtgaagtcttcctagttggagatttcttagatttggtttcgtttttt----ctatcaacagttgggacttttttttgacagttttgatttaacaaaaattgcag
||  |  | ||||||||||||||||||||||| || || ||||| ||||| |||||| | |||||||| || ||||||||||| |||| ||   | |  |  | | ||||     |||| ||| ||    |||   | |      | ||    ||| |     ||  ||   |   ||  ||| |   |||||||||
ACCTGCTTAACAATATGTGAGGGGCATGATGGGACTGAAACATCAAATGGAGATGTATTAATTTTTCCAGACATGATCAGATATAGgttagtactta--tagttccagttctg--tttcatagcttctaattcccctataaaagttctcctttgtttgcttaattccttattaacattagttttagtgaaattgcag

upper sequence: AT4G26620.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA18G08380.1 (Glycine max), 5'ss of exon 2
ACTCGACTCACAATATGTGAGGGGCATGATGGAACAGAGACATCCAATGGTGATGTACTTATTTTTCCTGATATGATCAGATACAGgtaaggggtga-agtct---tcctagttggagatttcttagatttggtttcgttttttctatcaacagttgggacttttttttgacagttttgatttaacaaaaattgcag
||  |  | ||||||||||||||||||||||| || || ||||| ||||| |||||| | |||||||| || ||||||||||| |||| ||   | | ||| |   | |   ||      |||| |        |     || || ||           | |  || |  |||   ||  ||| |   |||||||||
ACCTGCTTAACAATATGTGAGGGGCATGATGGGACTGAAACATCAAATGGAGATGTATTAATTTTTCCAGACATGATCAGATATAGgttagtacttatagtttcaattccgtttcacagcttctaattcccctataaaaattctccattgttttccttaattccttatcaaca---ttagttttagtgaaattgcag

upper sequence: AT4G26620.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA14G01640.1 (Glycine max), 5'ss of exon 2
ACTCGACTCACAATATGTGAGGGGCATGATGGAACAGAGACATCCAATGGTGATGTACTTATTTTTCCTGATATGATCAGATACAGgtaaggggtgaagtcttcctagttggagatttcttagatttggtttcgttttttctatcaacagttgggacttttttttgacagttttgatttaacaaaaattgcag
|||||  | || ||||||||||| |||||||| || |||||||| ||||| |||||  | || |||||||| ||| | |||||||||| || |      ||||         |   ||||  | | | |||||  ||||| |  ||    || |   |  || | ||||     | ||| |    ||||||||
ACTCGGTTAACGATATGTGAGGGTCATGATGGGACTGAGACATCTAATGGGGATGTGTTGATCTTTCCTGACATGGTTAGATACAGgtgagagtattgatctt--------aaaggttctctgttattgtttcccttttttt-ccacttcttaga--tcattgtggacaaca--ggttttagtggaattgcag

upper sequence: AT4G26620.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA02G47100.1 (Glycine max), 5'ss of exon 2
ACTCGACTCACAATATGTGAGGGGCATGATGGAACAGAGACATCCAATGGTGATGTACTTATTTTTCCTGATATGATCAGATACAGgtaagggg-------tgaagtcttcctagttggagatttcttagatttggtttcgttttttctatcaacagttgggacttttt------tttgacagttttgatttaacaaaaattgcag
|||||  | || ||||||||||| |||||||| || |||||||| ||||| |||||  | || |||||||| ||| | |||||||||| || |        ||||   |||   |||   | || | |   | |  ||    || || | |   |  ||    ||| ||      ||    |     | ||| |    ||||||||
ACTCGGTTAACGATATGTGAGGGTCATGATGGGACTGAGACATCTAATGGGGATGTGTTGATCTTTCCTGACATGGTTAGATACAGgtgagagtattgatctgaaaggttctctgttattgtttcccttcttcttcttcttcttctttttttccccttttccgcttcttagatcattgtggacaacaggttttagtggaattgcag

upper sequence: AT4G26620.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv19s0015g00750.t01 (Vitis vinifera), 5'ss of exon 2
ACTCGACTCACAATATGTGAGGGGCATGATGGAACAGAGACATCCAATGGTGATGTACTTATTTTTCCTGATATGATCAGATACAGgtaaggggtgaagtcttcctagttggagatttcttagatttggtttcgt----tttttctatcaacagttgggacttttttttgacagttttgatttaacaaaaattgcag
|| ||  | ||||||||||| || ||||||||||| |||||||| ||||| |||||| | || ||||| || |||||||||||||||| |      || |||     ||| || |||| |||    || | | ||    |  || |  |     ||   |||  ||    |  |||||  |     || || |||||
ACCCGCTTAACAATATGTGAAGGACATGATGGAACTGAGACATCAAATGGAGATGTATTAATATTTCCAGACATGATCAGATACAGgtcaaattacaattct-----gtttga-atttgttatggatgctcttgtagaatactttttcccctgcttaacactaatt----atggttttagta----aagaaatgcag

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|125262227|gb|EL276312.1|EL276312
EST:     GAGACATCCAATGGTGATGTACTTATTTTTCCTGATATGATCAGATACAG                         GAGATTGACTCA
genomic: GAGACATCCAATGGTGATGTACTTATTTTTCCTGATATGATCAGATACAGgtaaggggtg ... aaaattgcagGAGATTGACTCA