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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaaaagacccaacgaatgtttttattaagtatgtatcatggacctgttttggcatagtctctaagaatgaagaaactcaaaatctgtggacagGGCAAATTTTGGAATCGAAGAAATGTGTAGGGATCAGTGGAACTGGGCAAGCAACAATCCTTTCGGTTACGGTTCTTCACCAAACTCAACATAACGAAGC

Basic information

species Arabidopsis thaliana
transcript AT1G64440.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G64440.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os09g15420.1 (Oryza sativa), 3'ss of exon 8
gtaagtaaaagacccaacgaatgtttttattaagtatgt-atcatggacctgttttggcatagtctctaagaatgaagaaactcaaaatctgtggacagGGCAAATTTTGGAATCGAAGAAATGTGTAGGGATCAGTGGAACTGGGCAAGCAACAATCCTTTCGGTTACGGTTCTTCACCAAACTCAACATAACGAAGC---
    ||||   || ||   |        ||| || |  | ||||| ||  |||       |||| | |   |  |   |   || |  |||     ||||||||| | ||| |||||||||||||| || || || ||||||||||| ||||| ||||||||||| ||||   | || ||  |||| ||  | |  |     
----gtaagttacacagtaa-------cattgagaagatgatcattgat-tgtaaatttctagtttttctcatggtttagtgtcga--tcttccttcagGGCAAAATATGGCATCGAAGAAATGTGCAGAGACCAATGGAACTGGGCGAGCAAGAATCCTTTCGGGTACG---CCTCGCCCGACTCCACCAAGCAGAATGGT

upper sequence: AT1G64440.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os08g28730.1 (Oryza sativa), 3'ss of exon 8
gtaagtaaaagacccaacgaatgtttttattaa-gtatg-tatcatggacctgttttggcatagtctctaagaatgaagaaactcaaaatctgtggacagGGCAAATTTTGGAATCGAAGAAATGTGTAGGGATCAGTGGAACTGGGCAAGCAACAATCCTTTCGGTTACGGTTC--TTCACCAAACTCAACATAACGAAGC
                   | | |||  || || | ||  |  |||| |||| |||   | | || || |   |    | |        ||| |   ||| || || ||||| ||||| ||||||||||||||||| ||||||||||| ||||| || ||||  || ||||| ||  || ||   ||  | || |||| |  
----------------gtaagt-tttacatcaacggataatcacatgaaccttttt---cttggtttccacctaactggtatt-----gtctttccccagAGCGAAATTTGGCATCGATGAAATGTGTAGGGATCAATGGAACTGGGCTAGCAAGAACCCTTATGGATACGGGTCACTTGACTCCACCAAGCAGAACGGA--

upper sequence: AT1G64440.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: PP1S1_372V6.1 (Physcomitrella patens), 3'ss of exon 7
-----------------------------------------------------------------------------------------------gtaagtaaaagacccaacgaatgtttttattaagtatgtatcat--ggacctgttttggcatagtctctaagaatgaagaaactcaaaatctgtggacagGGCAAATTTTGGAATCGAAGAAATGTGTAGGGATCAGTGGAACTGGGCAAGCAACAATCCTTTCGGTTACGGTTCTTCACCAAACTCAACATAACGAAGC
                                                                                               ||  ||           || ||  ||  || | ||   | | ||   |  || |||| ||      ||| ||| |||   |  ||   || ||| | ||| ||  |   |||||| || ||||||||| | ||||||||||| ||||||||||| |||||    || ||  | ||    |   |     |   |   | |
gtaagttatttaaaccactcgatcatccaacaactagtgtattgggttgtactgatcacttgttatcatgtactccatctcatcggtgcatttgagttggtgggttcataggcgcattgttggatcaggttgctcttatctagtgctcttttcgctcg---tctgagattgatatatttctgtatatgttg-cagAGCGCAAAATGGAATTGATGAAATGTGTCGAGATCAGTGGAAGTGGGCAAGCAATAATCCAGATGGATATCGATCAAGTCAGGAGAAGTCTCCAGCGAAC

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|86084442|gb|DR380201.1|DR380201
EST:     GAAACCGTCTATGCGTCAACAGAAAAAGCTGAACGCGAACTAAACTGGAA                         GGCAAATTTTGGAATCGAAGAAATGTGTAGGGATCAGTGGAACTGGGCAAG
genomic: GAAACCGTCTATGCGTCAACAGAAAAAGCTGAACGCGAACTAAACTGGAAgtaagtaaaa ... ctgtggacagGGCAAATTTTGGAATCGAAGAAATGTGTAGGGATCAGTGGAACTGGGCAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggacctgttttggcatagtctctaagaatgaagaaactcaaaatctgtggacagGGCAAATTTTGGAATCGAAGAAATGTGTAGGGATCAGTGGAACTGGGCAAGCAACAATCCTTTCGGTTACGGTTCTTCACCAAACTCAACATAACGAAGC
                       taagaat  TA-rich tract