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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtgaaagattagtgttcagtgtttctgatatctaaaatgtagcttagatcttgactcaactaaaacacacatctaattgtagGACATGGAAATTCATGAATCACTTGGTAAAGCAGAGAAAGCACTGAAGATGAGCAAACGAAAAGATTGGTATAAGATTCTTGGAATTTCCAGAACCGCCT

Basic information

species Arabidopsis thaliana
transcript AT5G03160.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G03160.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os02g10180.1 (Oryza sativa), 3'ss of exon 8
---gttggtgaaagattagtgttcagtgtttctgatatctaaaatgtagcttagatctt--gactcaactaaaacacacatcta-attgt--------agGACATGGAAATTCATGAATCACTTGGTAAAGCAGAGAAAGCACTGAAGATGAGCAAACGAAAAGATTGGTATAAGATTCTTGGAATTTCCAGAACCGCCT
    ||  | | |  |   | |  |       || | |||    | |  ||    | ||  |   ||| |  ||||    | |  | |||        ||||||||| ||| |  ||| ||||    | ||| || ||    || ||| | |||||| ||||||||||||||||||| ||||| ||||| |  || || |
atgctttattagatttatctatcaaacagacttggtctctgccctttttctgtatttttttggtacaaatgtaacagtggtttgcactgttcatgctcagGACATGGGAATCCGAGAAGCACTAATGAGAGCTGAAAAGCAGCTTAAGTTAAGCAAAAGAAAAGATTGGTATAAGATCCTTGGCATTTCAAAGACGGCAT

upper sequence: AT5G03160.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os01g74580.1 (Oryza sativa), 3'ss of exon 7
---gttggtgaaagattagtgttcagtgtttctgatatctaaaatgtagcttagatctt--gactcaactaaaacacacatcta-attgt--------agGACATGGAAATTCATGAATCACTTGGTAAAGCAGAGAAAGCACTGAAGATGAGCAAACGAAAAGATTGGTATAAGATTCTTGGAATTTCCAGAACCGCCT
    ||  | | |  |   | |  ||      || | |||      |  ||    | ||  |   ||| |  ||||    | |  | |||        ||||||||| ||| |  ||| ||||    | ||| || ||    || ||| | |||||| ||||||||||||||||||| ||||| ||||| |  || || |
atgctttattagatttatctatctagcagacttggtctctgccccttttctgtatttttttggtacaaatgtaacaacggtttgcactgttcatgctcagGACATGGGAATCCGAGAAGCACTAATGAGAGCTGAAAAGCAGCTTAAGTTAAGCAAAAGAAAAGATTGGTATAAGATCCTTGGCATTTCAAAGACGGCAT

upper sequence: AT5G03160.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S84_119V6.1 (Physcomitrella patens), 3'ss of exon 8
----------gttggtgaaagattagtgttcagtgtttctgatatctaaaatgtagc--ttagatc--ttgactcaactaaaacacacatctaattgtagGACATGGAAATTCATGAATCACTTGGTAAAGCAGAGAAAGCACTGAAGATGAGCAAACGAAAAGATTGGTATAAGATTCTTGGAATTTCCAGAACCGCCT
              ||    ||    | | | ||     |  | ||| |||   |||  |||  ||  ||   || | | | |      |    | | |||||   ||  ||   |||  ||||   | ||| ||| | ||  ||||| |||||||||| || ||||||||||||||||| ||  |  | |  || || |
gcttccgtagaacagtcgtggaactctttcctgttcaagtcctgtctgaaaatcagcgattatttcggttatttctaatgataagagtgttatttggcagGACCACGACCTTAGAGAAGGACTTCACAGAGCTGAGCATGCCTTGAAGTTGAGCAAACGGAAGGATTGGTATAAGATTCTCGGTTTGACGAACACAGCAT

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|124889039|gb|EH967941.1|EH967941
EST:     TGGGAAGGAGCTGTGGAGGATTTAAAGCAAGCTGCTCAAAACTCTCAG                         GACATGGAAATTCATGAATCA
genomic: TGGGAAGGAGCTGTGGAGGATTTAAAGCAAGCTGCTCAAAACTCTCAGgttggtgaaa ... ctaattgtagGACATGGAAATTCATGAATCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatctaaaatgtagcttagatcttgactcaactaaaacacacatctaattgtagGACATGGAAATTCATGAATCACTTGGTAAAGCAGAGAAAGCACTGAAGATGAGCAAACGAAAAGATTGGTATAAGATTCTTGGAATTTCCAGAACCGCCT
     taaaatgta  TA-rich tract