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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAAAAGGAAATGAGAAAGGGTATTGATCTAGCTACTACACTCGAACGTATCGAGAAGAATTTCGTCATCACTGATCCTAGGCTTCCCGATAATCCCATTgtaagaacaaatgttttagaaaaatggaaactttttttgttatgtttcatttcgattggtctgaaaacgtattgtttgctttgtcctatgtttctag

Basic information

species Arabidopsis thaliana
transcript AT3G45780.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G45780.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os12g01140.1 (Oryza sativa), 5'ss of exon 6
ACAAAAGGAAATGAGAAAGGGTATTGATCTAGCTACTACACTCGAACGTATCGAGAAGAATTTCGTCATCACTGATCCTAGGCTTCCCGATAATCCCATTgtaaga-----acaaatgttttagaaaaatggaaactttttttgttatgtttcatttcgattggtctgaaaacgt----attgtttgctttgtcctatgtttctag
    || |||||||| | |||||| ||  | ||||||||||| |||||||| ||||||||||| |||||||| ||||| ||| | || ||||||||||||||||||     |   |   | |   |      | ||      |||| | ||| |||   || | | | |||   |    ||||| || ||||    || ||||   
GAGGAAAGAAATGAGGAGGGGTATAGACTTGGCTACTACACTTGAACGTATTGAGAAGAATTTTGTCATCACAGATCCAAGGTTGCCTGATAATCCCATTgtaagatccatatggaatctcttttacctcttacaccgcacctgttct-ttttattaatatggatattaaattttcatgattgtatgttttggttcatatttcag-

upper sequence: AT3G45780.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os11g01140.3 (Oryza sativa), 5'ss of exon 6
ACAAAAGGAAATGAGAAAGGGTATTGATCTAGCTACTACACTCGAACGTATCGAGAAGAATTTCGTCATCACTGATCCTAGGCTTCCCGATAATCCCATTgtaaga-----acaaatgttttagaaaaatggaaactttttttgttatgtttcatttcgattggtctgaaaacgt----attgtttgctttgtcctatgtttctag
    || |||||||| | |||||| ||  | ||||||||||| |||||||| ||||||||||| |||||||| ||||| ||| | || ||||||||||||||||||     |   |   | |   |      | ||      |||| | ||| |||   || | | | |||   |    | ||| || ||||    || ||||   
GAGGAAAGAAATGAGGAGGGGTATAGACTTGGCTACTACACTTGAACGTATTGAGAAGAATTTTGTCATCACAGATCCAAGGTTGCCTGATAATCCCATTgtaagatccatatggaatctcttttacctcttacaccgcacctgttct-ttttattaatatggatattaaattttcatgaatgtatgttttggttcatatttcag-

upper sequence: AT3G45780.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G001457_T02 (Zea mays), 5'ss of exon 5
ACAAAAGGAAATGAGAAAGGGTATTGATCTAGCTACTACACTCGAACGTATCGAGAAGAATTTCGTCATCACTGATCCTAGGCTTCCCGATAATCCCATTgtaagaacaaatgttttagaaaaatggaaactttttttgttatgtttcatttcga--------ttggtctgaaaacgtattg--tttgctttgtcctatgtttctag--------------
  | || |||||||||||||| || ||| | ||||| ||||| |||||||| || |||||||| |||||||| || || ||| | || |||||||| |||||||||  |||  |   | |      |    |    |   | |  ||  | ||||        | |  ||   |   |||||   |    |  |  ||| ||| | |              
GAAGAAAGAAATGAGAAAGGGCATAGATTTGGCTACCACACTTGAACGTATTGAAAAGAATTTTGTCATCACCGACCCGAGGTTACCAGATAATCCAATTgtaagacaaaagctcacataccttctgcctttaacatcactgttctttctatcgaaatagatatcgacctaccattatattgaactacagtcattatattttttttgggtgaatgtcacag

upper sequence: AT3G45780.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA12G07890.2 (Glycine max), 5'ss of exon 7
ACAAAAGGAAATGAGAAAGGGTATTGATCTAGCTACTACACTCGAACGTATCGAGAAGAATTTCGTCATCACTGATCCTAGGCTTCCCGATAATCCCATTgtaagaacaaatgttttagaaaaatggaaactttttttgtt------atgtttcatttc-------gattggtctgaaaacgtattgtttgctttgtcc---tatgtttctag------------
  | ||||||| |||||||||| ||||||| ||||| ||||| |||||||| |||||||| || |||||||||||||| ||||| || || || ||||||||||||  |    ||||   |  ||  ||   |    ||        ||| |  |||||       ||||  |  |   ||      |  ||||    |   || |||| ||             
GAAGAAGGAAAAGAGAAAGGGTCTTGATCTTGCTACCACACTTGAACGTATTGAGAAGAACTTTGTCATCACTGATCCAAGGCTGCCGGACAACCCCATTgtaagatgatcctttttgataccatttaatactccaatgcaacaaaaatggtgaatttctctatgggattaattcgtgtactagagatgagcttaagacgattacgtttttatttggttttccag

upper sequence: AT3G45780.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA15G04850.1 (Glycine max), 5'ss of exon 5
ACAAAAGGAAATGAGAAAGGGTATTGATCTAGCTACTACACTCGAACGTATCGAGAAGAATTTCGTCATCACTGATCCTAGGCTTCCCGATAATCCCATTgtaaga---------acaaatgttttagaaaaatggaaa----ctttttttgttatgtttcatttcga----ttggtctgaaaacg---------tattgtttgctttgtcctatgtttctag--------
 || | ||||| | |||| ||| ||||||| ||||| || || |||||||||||||| || || ||||| |||||||| |||||||| || ||||| || ||||||          ||  |||     |  | || |||     || | |  || ||||   | | |     |||  ||| |   |          | |||    ||||| ||   ||| ||         
GCAGAGGGAAAAGCGAAAAGGTCTTGATCTTGCTACCACGCTTGAACGTATCGAGAAAAACTTTGTCATTACTGATCCAAGGCTTCCAGACAATCCTATAgtaagactctctgaatcatttgtaccgcagtactgaaaaagtgtttctctaattctgttctgtgttggattcttgtactggaggtgaacatgtaacactgtaaagtttgtacttgctttttactttttcag

upper sequence: AT3G45780.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv06s0004g03700.t01 (Vitis vinifera), 5'ss of exon 6
ACAAAAGGAAATGAGAAAGGGTATTGATCTAGCTACTACACTCGAACGTATCGAGAAGAATTTCGTCATCACTGATCCTAGGCTTCCCGATAATCCCATTgtaagaacaaatgttttagaaaaatggaaactt--------tttttgttatgtttcatttcgattg-----gtctgaaaacgtattgt-ttgctttgtcctatgtttctag----------------
||||| |||||||||||  ||||||||||| || || || || |||||||| |||||||| || |||||||||||||| || || || |||||||||||||| |||| || |  || | |  | |||  |||         || || |||  ||    || ||         |  ||| |  ||| |  ||  |||||   ||  |||||                 
ACAAAGGGAAATGAGAAGAGGTATTGATCTGGCCACCACGCTTGAACGTATAGAGAAGAACTTTGTCATCACTGATCCCAGACTGCCTGATAATCCCATTgtgagaataa-tacttcaaattattggttactgcaatcatgttctttttaaattatgatttgagcatgcacataagaagaaatatgggatttgtttgtttgatagttctaactttttgaattttcag

upper sequence: AT3G45780.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: PP1S174_62V6.2 (Physcomitrella patens), 5'ss of exon 3
ACAAAA-GGAAATGAGAAAGGGTATTGATCTAGCTACTACACTCGAACGTATCGAGAAGAATTTCGTCATCACTGATCCTAGGCTTCCCGATAATCCCATTgtaagaacaaatgttttagaaaaatggaaactttttttgttatgtttcatttcgattggtctgaaaacgtattgtttgctttgtcctatgtttctag
 ||    ||  ||  |    || || ||  | ||||| ||||| || || || || ||||| |||||||| ||||||||  ||||||| |||||||||||||||||    | | ||         | |  |   |   |  |       |  | ||||  ||||     |||     | ||| |  || |        
-CACTCTGGGCATCCGTCGAGGAATCGACTTGGCTACAACACTGGAGCGAATTGAAAAGAACTTCGTCATAACTGATCCCCGGCTTCCTGATAATCCCATTgtaagttgtagtctt-----ggcgttgctatcatagctcatgcacaatacatggatta-tctgtggcagtaactaattcttggcgctctacag----

upper sequence: AT3G45780.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: EFJ27458 (Selaginella moellendorffii), 5'ss of exon 6
-ACAAAAGGAAATGAGAAAGGGTATTGATCTAGCTACTACACTCGAACGTATCGAGAAGAATTTCGTCATCACTGATCCTAGGCTTCCCGATAATCCCATTgtaagaacaaatgttttagaaaaatggaaactttttttgttatgtttcatttcgattggtctgaaaacgtattgtttgctttgtcctatgtttctag
  || ||| ||||  | || ||  ||||||| || || || || |||||||||||||||||||||||||| ||||||||  |  | || || || || || ||||| |  |  |    |   | ||| |   |    || || |||||                                                  
TGCAGAAG-AAATACGTAAAGGGTTTGATCTGGCAACAACTCTTGAACGTATCGAGAAGAATTTCGTCATTACTGATCCACGCTTGCCAGACAACCCAATCgtaagcatgagag---aaatgacatgcatgttaaggtttttctgtttag------------------------------------------------

upper sequence: AT3G45780.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: EFJ07343 (Selaginella moellendorffii), 5'ss of exon 6
-ACAAAAGGAAATGAGAAAGGGTATTGATCTAGCTACTACACTCGAACGTATCGAGAAGAATTTCGTCATCACTGATCCTAGGCTTCCCGATAATCCCATTgtaagaacaaatgtttta-gaaaaatgg-aaactttttttgttatgtttcatttcgattggtctgaaaacgtattgtttgctttgtcctatgtttctag
  || ||| ||||  | || ||  ||||||| || || || || ||||||||||||||||||||||| || ||||||||  |  | || || || || || ||||| |  |  |   |  ||   |||  ||  ||||| ||||  |                                                     
TGCAGAAG-AAATACGTAAAGGATTTGATCTGGCAACAACTCTTGAACGTATCGAGAAGAATTTCGTTATTACTGATCCACGCTTGCCAGACAACCCAATCgtaagcatgagagaaatgtgatgcatgttaaggtttttctgtttag-----------------------------------------------------

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|124812262|gb|EH897128.1|EH897128
EST:     TCGAGAAGAATTTCGTCATCACTGATCCTAGGCTTCCCGATAATCCCATT                         ATTTTTGCATCTGATA
genomic: TCGAGAAGAATTTCGTCATCACTGATCCTAGGCTTCCCGATAATCCCATTgtaagaacaa ... atgtttctagATTTTTGCATCTGATA
EST: gi|86087858|gb|DR383617.1|DR383617
EST:     TCGAGAAGAATTTCGTCATCACTGATCCTAGGCTTCCCGATAATCCCATT                         ATTTTTGCATCTGATAGTTTCTTGGAGCTCACGGAATATAGCCGTGAAGAA
genomic: TCGAGAAGAATTTCGTCATCACTGATCCTAGGCTTCCCGATAATCCCATTgtaagaacaa ... atgtttctagATTTTTGCATCTGATAGTTTCTTGGAGCTCACGGAATATAGCCGTGAAGAA