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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttaatcagaaattttaaatcttcttcatttgttcttttatttttaacatgattttgttttttcaaaaattgaataatttgatttttgagtatagAGGAAGCACATGTGCCATGCGATGTTGCTAGAGACGGTGGCTGCGGTGCCGGGAATGGTCGGGGGGATGCTTTTGCACTTGAAATCTCTCCGGAGGTTCG

Basic information

species Arabidopsis thaliana
transcript AT1G32350.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G32350.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os04g51150.1 (Oryza sativa), 3'ss of exon 2
gtaatttaatcagaaattttaa-atcttcttcatttgttcttttatttttaacatgattttgttttttcaaaaattgaataatttgattt---ttgagtatagAGGAAGCACATGTGCCATGCGATGTTGCTAGAGACGGTGGCTGCGGTGCCGGGAATGGTCGGGGGGATGCTTTTGCACTTGAAATCTCTCCGGAGGTTCG
   |  | ||    | || ||  |   | |  |  || ||| |  |   |  |    |  |||   |   ||   | || | |   | ||   ||| ||  |||||| | |    ||||  |||||| |||| ||||||||||| ||||||||||| ||||| || || |||||  | ||| |    || |||||| | ||||
---acatgatatccatttctagtagtatgtggaaatgatctctagtcggtcgctaattgctgtaactgtcaatggttaacactgcaaattgggttgggtgcagAGGAGGTATGGCTGCCGCGCGATGATGCTGGAGACGGTGGCGGCGGTGCCGGGGATGGTGGGCGGCATGCTGCTCCACCTCCGGTCCCTCCGGCGCTTCG

upper sequence: AT1G32350.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os02g47200.1 (Oryza sativa), 3'ss of exon 2
gtaatttaatcagaaattttaaatcttcttcatttgttcttttatttttaacatgattttgttttttcaaaaattgaataatttgatttttgagtatagAGGAAGCACATGTGCCATGCGATGTTGCTAGAGACGGTGGCTGCGGTGCCGGGAATGGTCGGGGGGATGCTTTTGCACTTGAAATCTCTCCGGAGGTTCG
||||   || || || |  |    | ||     |  | |   | | |||  | ||||     |   |   ||  | |||     ||||||       |||||| | ||  |||||  |||||| |||| ||||||||||| ||||||||||| ||||| || || |||||  ||||| |    || |||||  | ||||
gtaacc-aaccacaactaattttccatcaaagatcatgccaatctattttgc-tgatcgaaatggatgggaa--tcaatggaacgatttt-----gcagAGGAGGTACGGGTGCCGCGCGATGATGCTGGAGACGGTGGCGGCGGTGCCGGGGATGGTGGGCGGCATGCTGCTGCACCTCCGGTCGCTCCGCCGCTTCG

upper sequence: AT1G32350.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os02g21300.1 (Oryza sativa), 3'ss of exon 2
-------gtaatttaatcagaaattttaaatcttcttcatttgttcttttatttttaaca-tgattttgttttttcaaaaattgaataatttgatttttgagtatagAGGAAGCACATGTGCCATGCGATGTTGCTAGAGACGGTGGCTGCGGTGCCGGGAATGGTCGGGGGGATGCTTTTGCACTTGAAATCTCTCCGGAGGTTCG
        |||||      || | || | |  |  |    ||| |  |  | |  || ||   ||  ||  |        || |   |||||| || |       |||||| | ||  |||||  |||||| |||| ||||||||||| ||||||||||| ||||| |  ||   | |  ||||  ||   || || ||| ||||||
gaagcgattaattcgtatcgagagttgataattgatcagattgctaatcaactagtagcagcaatgatgaatgaattctgat-ggtcaatttggttgtc------agAGGAGGTACGGGTGCCGGGCGATGATGCTGGAGACGGTGGCGGCGGTGCCGGGGATGGTGGCCGGCGCGGTGCTGCATCTGCGTTCGCTGCGGCGGTTCG

upper sequence: AT1G32350.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv02s0033g01380.t01 (Vitis vinifera), 3'ss of exon 2
--gtaatttaatcagaaattttaaatcttcttcatttg------ttcttttatttttaacatgattttgttttttcaa--aaattgaataatttgatttttgagtatagAGGAAGCACATGTGCCATGCGATGTTGCTAGAGACGGTGGCTGCGGTGCCGGGAATGGTCGGGGGGATGCTTTTGCACTTGAAATCTCTCCGGAGGTTCG
      |||| ||| |   |   |  || |||  | ||      |  | || ||| || | |     | ||    ||   ||||  || ||||  ||| || |  | |||| ||||||||||||||||| ||| |||| ||||||||||| |||||||| || ||||||||||| ||||| |||||||   | || |   || ||||||
gtaccttttattcacacgatcccacgctgctttttctgaatgggtcatattttttctagcgttgccattttcccccatttaaatataagaattccattcttaatgacagAGAAAGCACATGTGCCATGCCATGCTGCTGGAGACGGTGGCAGCGGTGCCAGGCATGGTCGGGGGAATGCTGTTGCACTGCCAGTCCCCGAGGCGGTTCG

upper sequence: AT1G32350.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: EFJ27318 (Selaginella moellendorffii), 3'ss of exon 2
-------------------------------------------------------------------------gtaatttaatcagaaattttaaatc---ttcttcatttgttcttttatttttaacatgattttgtttt------ttcaaaaatt--gaataatttgatttttgagtatagAGGAAGCACATGTGCCATGCGATGTTGCTAGAGACGGTGGCTGCGGTGCCGGGAATGGTCGGGGGGATGCTTTTGCACTTGAAATCTCTCCGGAGGTTCG
                                                                         | |  | ||| || |  ||||  |    | |||     |||| |     |  |||  | ||||  |||       | | ||| |  || | |||| |||||||     || |     ||   ||||  |||||| |||| ||||| || |||||||| ||||| |||||||||||||||||  ||||||     || || ||  ||||||
gtgaaagcgatgcgtttgcccacagacattttcttccaggcaagatatctttctttctttctttctatcttttgaatatgaatgagcatgtttatgttgaatccttgcgaagttcctggggatcaaacgagtttttagtttgctagtcttataaacttggactgattttatttttg----cagCGACGATACGGCTGCCGAGCGATGATGCTCGAGACTGTCGCTGCGGTCCCGGGGATGGTCGGGGGGATGCTGCTGCACTGCCGCTCGCTTCGCCGGTTCG

upper sequence: AT1G32350.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: EFJ35306 (Selaginella moellendorffii), 3'ss of exon 2
---------------------------------------------------------------------gtaatttaatcagaaattttaaatc---ttcttcatttgttcttttatttttaacatgattttgtttt------ttcaaaaatt--gaataatttgatttttgagtatagAGGAAGCACATGTGCCATGCGATGTTGCTAGAGACGGTGGCTGCGGTGCCGGGAATGGTCGGGGGGATGCTTTTGCACTTGAAATCTCTCCGGAGGTTCG
                                                                     | |  | ||| || |  ||||  |    | |||     | || |     |  |||  | ||||  |||       | | ||| |  || |  ||| |||||||     || |     ||   ||||  |||||| |||| ||||| || |||||||| ||||| |||||||||||||                                 
gtgaaagcgatgcgtttgcccacagacattttcttccaggcaagatatctttctctctttctatcctttgaatatgaatgagcatgtttatgttgaatccttgcgaagctcctggggatcaaacgagtttttagtttgctagTCTTATAAACTTGGACTGGTTTTATTTTTG----CAGCGACGATACGGCTGCCGAGCGATGATGCTCGAGACTGTCGCTGCGGTCCCGGGGATGGTCGGGGGGA---------------------------------

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|301502206|gb|HO207746.1|HO207746
EST:     CATATTGGACCGTTCAAACTCTGAAAATACCGGTTCAACTATTTTTTCAG                         AGGAAGCACATGTGCCATGCGATGTTGCTAGAGACGGTGGCTGCGGTGCCG
genomic: CATATTGGACCGTTCAAACTCTGAAAATACCGGTTCAACTATTTTTTCAGgtaatttaat ... ttgagtatagAGGAAGCACATGTGCCATGCGATGTTGCTAGAGACGGTGGCTGCGGTGCCG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttaacatgattttgttttttcaaaaattgaataatttgatttttgagtatagAGGAAGCACATGTGCCATGCGATGTTGCTAGAGACGGTGGCTGCGGTGCCGGGAATGGTCGGGGGGATGCTTTTGCACTTGAAATCTCTCCGGAGGTTCG
                                          ttttt  CT-rich tract
        atgattttgttttttc  TA-rich tract