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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaagattaataaactgctacattatttgaaaatactgaaaagaaatacaaatactcattctcttgttttcacaattgcagAGAAGCAGAGATGAGGATTGTGAGTGAAAAAACAAACTCGAGAGTCGCATGGTACAGTATAATGTCGCTGGGGATTTGCATTGTGGTCTCTGGTTTACAG

Basic information

species Arabidopsis thaliana
transcript AT1G57620.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G57620.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G13470.1 (Glycine max), 3'ss of exon 3
---------------gtaaaagattaataaactgctacattatttgaaaatactgaaaagaaa----tacaaatactcattctcttgttttcacaattgcagAGAAGCAGAGATGAGGATTGTGAGTGAAAAAACAAACTCGAGAGTCGCATGGTACAGTATAATGTCGCTGGGGATTTGCATTGTGGTCTCTGGTTTACAG
                 || |  |      |    ||  |||||| ||  |  |   || |||    | || ||  | | | | | |||||     || ||| ||||| |||||||||||||||||||||||||||||    ||||| |||||||  || || |||||  |||  || |||||||  || |||||||| || 
gtaattccaatcacatcaatatctccccctataaatagtttatttcaatttttttttaaaaaaacttttcatatgtttaatttttggtttttg-ggtttcagGGAAGCTGAGATGAGGATTGTGAGTGAAAAAACAAATGGCAGAGTGGCATGGTTTAGCATTATGTCCTTGGCTATGTGCATTGCAGTTTCTGGTTTGCAA

upper sequence: AT1G57620.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv12s0034g01440.t01 (Vitis vinifera), 3'ss of exon 3
-----------------------------gtaaaagattaataaactgctacattatttgaaaatactgaaaagaaatacaaatactcattctcttgttttcacaattgcagAGAAGCAGAGATGAGGATTGTGAGTGAAAAAACAAACTCGAGAGTCGCATGGTACAGTATAATGTCGCTGGGGATTTGCATTGTGGTCTCTGGTTTACAG
                              |  ||  ||  |  | |||||    ||| ||  ||||     |  | |       | |||| | |||   |   | |  |||||||||||| |||||||| ||||| |||||||||||  | ||||| ||||||||||| || |||||  ||||  | |||||||  || || | ||| |||
gtaatttttatggttttagttggaacagcatctaatgtttttgcattgctaatcaattagatcataccagttaccatttt--tctcccatttttttggacttttactcacagAGAAGCAGAAATGAGGATGGTGAGCGAAAAAACAAATGCAAGAGTGGCATGGTACAGCATCATGTCATTGGGCGTCTGCATTGCAGTTTCAGCTTTGCAG
















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|19797874|gb|AU229512.1|AU229512
EST:     GAAGGTGCAGTTGAAGCAATCCATGAAAATCTGATTTACCTCAGAAACAG                         AGAAGCAGAGATGAGGGATTGTGAGTGAAAAAACAAAGCTCGAAATTCGCA
genomic: GAAGGTGCAGTTGAAGCAATCCATGAAAATCTGATTTACCTCAGAAACAGgtaaaagatt ... acaattgcagAGAAGCAGAGATGA-GGATTGTGAGTGAAAAAACAAA-CTCGAGAGTCGCA
EST: gi|86076995|gb|DR372752.1|DR372752
EST:     GAAGGTGCAGTTGAAGCAATCCATGAAAATCTGATTTACCTCAGAAACAG                         AGAAGCAGAGATGAGGATTGTGAGTGAAAAAACAAACTCGAGAGTCGCATG
genomic: GAAGGTGCAGTTGAAGCAATCCATGAAAATCTGATTTACCTCAGAAACAGgtaaaagatt ... acaattgcagAGAAGCAGAGATGAGGATTGTGAGTGAAAAAACAAACTCGAGAGTCGCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaaaatactgaaaagaaatacaaatactcattctcttgttttcacaattgcagAGAAGCAGAGATGAGGATTGTGAGTGAAAAAACAAACTCGAGAGTCGCATGGTACAGTATAATGTCGCTGGGGATTTGCATTGTGGTCTCTGGTTTACAG
                                ttctcttgttttcac  CT-rich tract
            aaaagaaatacaaata  TA-rich tract