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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGATTATTGGCCGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAGgtgattatgtctgtaggcttttatgctgatgatctacatttaaaagaaatgcttaatctttgtactttttcactgagcag

Basic information

species Arabidopsis thaliana
transcript AT3G25800.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G25800.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os09g07510.1 (Oryza sativa), 5'ss of exon 4
TAGATTATTGGCCGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAGgtga-ttatgtctgtag-----gcttttatgctgatgatctacatttaaaagaaatgcttaatctttgtactttttcactgagcag-----------------------------------------------------------------------------------
  | || ||||| ||||| || |||||||||||||||||||||||||| || || ||||||||   ||| || ||||| || ||||| |||||||| ||||| | |||   |  ||       | |   ||      |  |    | | |   |||  ||| |    |   ||  | | |    ||                                                                                   
ACGCTTGTTGGCAGTTGAAGGCTGTGCTGCTCTTGGGAAATTGTTGGAACCACAAGATTGTGTAGCACATATCCTTCCAGTTATTGTCAATTTCTCCCAGgtaaattacacccctacttggtacctcagtgtcatctacttgatatcacatataatatttatttgcagacattcattagttgctagaggttcctgatgctccgagttgcttctgttgtatgtgttaccataattatgacatcttttactctctgtaactcattaaatag

upper sequence: AT3G25800.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G122135_T01 (Zea mays), 5'ss of exon 4
TAGATTATTGGCCGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAGgtg-att------atgt------ctgtaggcttttatgctgatgatctacatttaaaagaaatgcttaatctttgtactt--tttcactgagcag-----------------------------------------------------------------------------------------------------
  | || ||||| ||||| ||||||||||||||||| |||||||||||||| || ||||||||    ||||||||||| || ||||| |||||||| |||||  |||      ||||      || ||   |||   ||   | || | | ||        ||   | ||      || |  ||| | |    ||                                                                                                     
GCGTTTGTTGGCTGTTGAAGGTTGTGCTGCTCTTGGTAAATTGTTGGAGCCACAAGATTGTGTAGCTCACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgctcccatgttggaccctatacattttgcagcaagtaatttgctttctttgtggatatattattgggagacatgtttttagttgctagaggttgataatttctcggagtcgcctcttagttttgcaacttgctgcagttcagtgcattaccgctgataaatgctacttgcatatactcgctttgtttag

upper sequence: AT3G25800.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G102858_T01 (Zea mays), 5'ss of exon 4
TAGATTATTGGCCGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAGgtgattatgtctgtaggcttttatgctgatgatctacat-ttaaaagaaatgcttaa--tctttgtactttttcactgagcag------------------------------------------------------------------------------------------------------------------------
  || ||||||| |||||||||||||||||||||||||| ||||||||||| || |||||||    ||| ||||| || || ||||| |||||||| |||||    || ||| ||  |  || || ||      || || ||   ||||| | | ||  | |   ||||  ||| |  |  |                                                                                                                         
GCGACTATTGGCAGTTGAGGGTTGTGCTGCTCTTGGGAAGTTGTTGGAGCCCCAAGATTGTGCAGCACATATTCTCCCAGTTATTGTAAATTTCTCTCAGgt----atatct-tacacacttttggtggcttaataaatgttgggagaaaagataaagttgtcaatactaattctcgtaaaaattactagagtaagatttccataagatctgctactagacaataatttcatgtgcttaagtttcagcacactaccatacatggttaatgatttcaattgcttatgttttcttaacatctcag

upper sequence: AT3G25800.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G164352_T04 (Zea mays), 5'ss of exon 4
TAGATTATTGGCCGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAGgtg------------attatgtctgtaggcttttatgctgatgatctaca---tttaaaagaaatgcttaatctttgtactttttcactgagcag-----
  |  | ||||| ||||| || |||||||| ||||| ||||||||||| || || ||||| ||   |||||||||||| || ||||| |||||||| |||||              ||    |  ||     |   ||   | || | |    |||    | ||   ||| ||     ||     |  || |        
GCGTCTGTTGGCTGTTGAAGGCTGTGCTGCCCTTGGTAAATTGTTGGAACCACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgctcccatgttggacccatacatcctgcagcaagtaatttgctttctttgtctggaaatattattccccagaccccacccgtgggagcttcca

upper sequence: AT3G25800.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA02G10790.2 (Glycine max), 5'ss of exon 4
-------------TAGATTATTGGCCGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAGgtgattatgtctgtaggcttttatgctgatgatctacatttaaaagaaatgcttaatctttgtactttttcactgagcag--
             |||||| ||||| || |||||||||||||||||||||||| || ||||||| || |||||  ||  ||| || || || || ||||| || ||||||||||||  | | |  | ||     ||| ||| |  |   |||   |||  |||  ||   |||  |  |  || |       |  
ATCAAGACTCTGTTAGATTGTTGGCTGTGGAGGGTTGTGCTGCTCTTGGGAAACTGCTGGAGCCACAAGATTGCATCACACATATACTACCGgttattgtcaacttctcgcaggtgtattt-ttagcagtgaaatatactgttagttatcatc--aaattaatttttctgcttcattatgcttaaaactattgct

upper sequence: AT3G25800.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA02G10790.1 (Glycine max), 5'ss of exon 4
TAGATTATTGGCCGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAGgtga--ttatgtctgtaggcttttatgctgatgatc-tacatttaaaagaaatgcttaat----ctttgtactttttcactgagcag-------------
|||||| ||||| || |||||||||||||||||||||||| || ||||||| || |||||  ||  ||| || || || || ||||| || ||||||||||||   || |  | ||    | |  || |  | ||| |  | ||||      ||||| ||    |||   ||| || |  |    ||             
TAGATTGTTGGCTGTGGAGGGTTGTGCTGCTCTTGGGAAACTGCTGGAGCCACAAGATTGCATCACACATATACTACCGGTTATTGTCAACTTCTCGCAGgtgtatttttagcagtgaaatatactgttagttatcatcaaattaatttttctgcttcattatgcttaaaactattgctttatctagtaatgttcagttt

upper sequence: AT3G25800.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA10G42250.1 (Glycine max), 5'ss of exon 4
TAGATTATTGGCCGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAGgtg-attat-gtctgtaggcttttatgctgatgatctacattta-aaagaaatgcttaatctttgtactttttcactgagcag------------------
 ||||| ||||| || ||||| |||||||||||||| ||  |||||||||| || ||||||||   ||| || || || || |||||||| ||||| |||||  || || |    | |   | |||    || ||  |||   | | ||| ||     | |||   |  |||  | |  | |                   
CAGATTGTTGGCTGTGGAGGGCTGTGCTGCTCTTGGCAAGCTGTTGGAGCCACAAGATTGTGTTGCACATATACTCCCGGTTATTGTTAACTTCTCCCAGgtacatgataggaactggatatatatatatat-atacacacacacacagatatatactagcttctgatatttggaataggaaaacagaatgataaaacagt

upper sequence: AT3G25800.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA20G24790.1 (Glycine max), 5'ss of exon 4
TAGATTATTGGCCGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAGgt----gattatgtctgtaggcttttatgctgatg-atctacatttaaaagaaatg---cttaatctttgtactttttcactgagcag------------
 ||||| ||||| || ||||| |||||||||||||| ||  |||||||||| || ||||||||   ||| || || || || |||||||| ||||| |||||    |||     |||||    | |||    ||  || || || || |   ||||      || |||   |  |||  | |  | |             
CAGATTGTTGGCTGTGGAGGGCTGTGCTGCTCTTGGCAAGCTGTTGGAGCCACAAGATTGTGTTGCACATATACTCCCGGTTATTGTTAACTTCTCCCAGgtacatgataggaactgtatatatatatatatatatatatatatatatatataatgagagacaagcttctgatatttggaataggaaaacagaacgataa

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|86040357|gb|DR336112.1|DR336112
EST:     CTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAG                         GATAAGTCTTGGCGTGTGCGCTATATGGTTGCAAATCAACTCTACGAGCTT
genomic: CTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAGgtgattatgt ... cactgagcagGATAAGTCTTGGCGTGTGCGCTATATGGTTGCAAATCAACTCTACGAGCTT
EST: gi|125007184|gb|EL079453.1|EL079453
EST:     CTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAG                         GATAAGTCTTGGCGTGTGCG
genomic: CTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAGgtgattatgt ... cactgagcagGATAAGTCTTGGCGTGTGCG
EST: gi|86040358|gb|DR336113.1|DR336113
EST:     CTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAG                         GATAAGTCTTGGCGTGTGCGCTATATGGTTGCAAATCAACTCTACGAGCTT
genomic: CTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAGgtgattatgt ... cactgagcagGATAAGTCTTGGCGTGTGCGCTATATGGTTGCAAATCAACTCTACGAGCTT
EST: gi|86040356|gb|DR336111.1|DR336111
EST:     CTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAG                         GATAAGTCTTGGCGTGTGCGCTATATGGTTGCAAATCAACTCTACGAGCTT
genomic: CTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAGgtgattatgt ... cactgagcagGATAAGTCTTGGCGTGTGCGCTATATGGTTGCAAATCAACTCTACGAGCTT
EST: gi|125277273|gb|EL291358.1|EL291358
EST:     CTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAG                         GATAAGTCTTGGCGTGTGCGCTATATGGTTGCAAATCAACTCTAC
genomic: CTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAGgtgattatgt ... cactgagcagGATAAGTCTTGGCGTGTGCGCTATATGGTTGCAAATCAACTCTAC
EST: gi|164016870|gb|ES116636.1|ES116636
EST:     CTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAG                         GATAAGTCTTGGCGTGTGCGCTATATGGTTGCAAATC
genomic: CTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAGgtgattatgt ... cactgagcagGATAAGTCTTGGCGTGTGCGCTATATGGTTGCAAATC