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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttgggcattgcttattggtgctcctatggcgttatttaagttccaaatactattgaattctaaactatatttgaccattgaactagttacttgttttttttcttagACTAACAGTGATTTCGATGCAAAACCTATGGTAATGCTTCTGGGTCAATACTCCACAGGAAAAACAACATTCATTAAGCATTTGCTTAAATCTACTTATC

Basic information

species Arabidopsis thaliana
transcript AT3G20290.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G20290.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os04g57350.1 (Oryza sativa), 3'ss of exon 8
gtgagttgggcattgcttattggtgctcctatggcgttatttaagttccaaatactattgaattctaaactat-atttgaccattgaactagttac---ttgttttt---tttcttagACTAACAGTGATTTCGATGCAAAACCTATGGTAATGCTTCTGGGTCAATACTCCACAGGAAAAACAACATTCATTAAGCATTTGCTTAAATCTACTTATC
                 |   |       | |||   ||   |||  |   || |   | | ||   |   || | ||    || || ||   |||    |||||||   |||  ||||||| ||||||||||||||| || || ||||| ||| | |||||||| || |||||||||||||| |||||||| |||||||| || ||  | | |||||
-----------------tgaagaaaaagtt-tggaactaaacaaggcctctattcctctcagttggcatgcatgacttcctaatggagctttctacgtcatgtttttccattttgtagACTAGCAGTGATTTCGATGCGAAGCCAATGGTCATGTTGCTGGGTCAGTATTCCACAGGAAAAACCACATTCATAAAGCATTTACTGAAGACAAATTATC

upper sequence: AT3G20290.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G065012_T03 (Zea mays), 3'ss of exon 8
gtgagttgggcattgcttattggtgctcctatggcgttatttaagttccaaatactattgaattctaaactat-atttgaccattgaactagttacttgt----tttttttctt-----agACTAACAGTGATTTCGATGCAAAACCTATGGTAATGCTTCTGGGTCAATACTCCACAGGAAAAACAACATTCATTAAGCATTTGCTTAAATCTACTTATC
|| | ||   | |   || ||    || |  |    ||  ||      ||||    | |   || |||| | |  | |  |   |   || || | || |       |   |||     |||||| ||| ||||||||||| || || ||||| |||||  |||||||||||||||| || |||||||||||||| |||||||| || ||| | | |||||
gtaattttcac-tcctttgttttatctgcagtttaatttgttctacaacaaaggtaaatctgttgtaaagtgttgtgtcgctcctttgctggtaatttctgcccccctccccttcaaacagACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATC

upper sequence: AT3G20290.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA18G10150.1 (Glycine max), 3'ss of exon 7
---------------------------------------gtgagttgggcattgcttattggtgctcctatggcgttatttaa-gttccaaatactattgaattctaaac--------tatattt-gaccattgaacta--gttacttgttttttttcttagACTAACAGTGATTTCGATGCAAAACCTATGGTAATGCTTCTGGGTCAATACTCCACAGGAAAAACAACATTCATTAAGCATTTGCTTAAATCTACTTATC
                                          ||    || |   |||||  |  |   ||    | ||| ||   || ||  || |||  ||   ||          || |||| |   ||| |   |  |||| |  ||| |  | | |||| || ||||| || ||||| |||||||||||  ||||| ||||||||||||| || || ||||||||||| ||||||||| ||||||||   | |||||
gttagtaagtgattttatttatttggtttaattgagaaaacaagacaagc-tactttattttttgtttcatttgttaattcaataatctaatgaccattatatataaagagaaagatatacatttaggttatttattgattgttattcctttctcatttcagACAAATAGTGACTTTGATGCCAAACCTATGGTTTTGCTTTTGGGTCAATACTCAACTGGGAAAACAACATTTATTAAGCATATGCTTAAAAGCAGTTATC

upper sequence: AT3G20290.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA02G46350.2 (Glycine max), 3'ss of exon 8
-------------------------------------gtgagttgggcattgc--ttattggtgctcctatggcgttatttaagttccaaata-ctattgaattctaaactatatttgaccattgaactagttacttgttttttttcttagACTAACAGTGATTTCGATGCAAAACCTATGGTAATGCTTCTGGGTCAATACTCCACAGGAAAAACAACATTCATTAAGCATTTGCTTAAATCTACTTATC
                                          ||    ||  |  || || ||||    |||  |||| | | |||  ||||| |||   |  | || | |   |||    |||||  | || | |  ||   | |  ||||| || ||||| || ||||| ||||| ||||| |||||| ||||||| ||||| || || ||||||||||| || || ||| ||||||||  || |||||
gtcagtaagttattttgtttagaaatgactagctactccagatttactatcacctttctttgtgcagtcatgttgttact-atgttttaaatatctacaaagatatacaattagtttctttattga--ttgtaattctttacatattgtagACAAATAGTGACTTTGATGCCAAACCAATGGTTATGCTTTTGGGTCAGTACTCAACTGGTAAAACAACATTTATCAAACATCTGCTTAAAAGTAGTTATC

upper sequence: AT3G20290.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv19s0090g01130.t01 (Vitis vinifera), 3'ss of exon 8
------------------------------------------gtgagttgggcattgcttattggtgctcctatggcgttatttaagttccaaatactattgaattctaaactatatttgaccat------tgaactagttacttg-----------ttttttttcttagACTAACAGTGATTTCGATGCAAAACCTATGGTAATGCTTCTGGGTCAATACTCCACAGGAAAAACAACATTCATTAAGCATTTGCTTAAATCTACTTATC
                                             | | |   | |  |  ||| | ||  |      || ||| | || ||  || |  |  ||| ||||| ||     |  ||      ||| ||  | |||||           || ||| |   |||| || || ||||| ||||| ||||||||||| |||||| ||||||||||||| || |||||||| || |||||||| |||||||| ||   || |||||
gtaagcgagaaatacacccagcttttaattgctttcatcctcagaaatagcaaaataatc-ttgattctaatgaatgtttgtttgatttacatctattgctatattttaaaccatggacaatgatatataatgagcttatcacttgctgttgatgtgttatttgttgcagACAAATAGCGATTTTGATGCCAAACCTATGGTTATGCTTTTGGGTCAATACTCAACTGGAAAAACTACTTTCATTAAACATTTGCTGAAGAGTAGTTATC

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|125295160|gb|EL309245.1|EL309245
EST:     ATCCCCTTTGTTG                         ACTAACAGTGATTTCGATGCAAAACCTATGGTAATGCTTCTGGGTCAATAC
genomic: ATCCCCTTTGTTGgtgagttggg ... tttttcttagACTAACAGTGATTTCGATGCAAAACCTATGGTAATGCTTCTGGGTCAATAC
EST: gi|164062373|gb|ES079780.1|ES079780
EST:     AGCCACTTGAAGTAGCATATCGGTTTAACGATTTTGTATCCCCTTTGTTG                         ACTAACAGTGATTTCGA
genomic: AGCCACTTGAAGTAGCATATCGGTTTAACGATTTTGTATCCCCTTTGTTGgtgagttggg ... tttttcttagACTAACAGTGATTTCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgaattctaaactatatttgaccattgaactagttacttgttttttttcttagACTAACAGTGATTTCGATGCAAAACCTATGGTAATGCTTCTGGGTCAATACTCCACAGGAAAAACAACATTCATTAAGCATTTGCTTAAATCTACTTATC
                                   ttacttgttttttttc  CT-rich tract
     attctaaactatattt  TA-rich tract