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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtttgatttctctcatctttttctctattctttggcttccgagccgggtttatagtttgtgcttaattctcaatgccttatgcaattgtagGTATACATTACTCAAAGAAGTTGGTGACGGAACATTTGGGAATGTTTGGCGAGCTGTCAATAAACAGACGAATGAAGTT

Basic information

species Arabidopsis thaliana
transcript AT5G45430.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G45430.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os06g02555.1 (Oryza sativa), 3'ss of exon 1
----------------gtaggtttgatttctctcatctttttctctattcttt--ggcttccgagccgggtttatagtttgt----gcttaattctcaatgcctta-tgca----attgtagGTATACATTACTCAAAGAAGTTGGTGACGGAACATTTGGGAATGTTTGGCGAGCTGTCAATAAACAGACGAATGAAGTT
                 |   |  ||| |      | | | | | | |   |   ||||  |      | |  | || ||||    ||| | | || | | | ||  ||||      |  |||||||   |  | || ||||||||||||||||||||||||| ||||||||| ||  |||| ||| |||    |||||| 
gtaaataacaccccttctctctcagatgttgtgtgtgtgtgtatgtgtgtgtaagggctctctcagatgttcaagagcttgtacctgctgagtgctaacttctttcctgcatcatgcttcagGTATAAGATTATTAAGGAAGTTGGTGACGGAACATTTGGGAGTGTTTGGCGCGCGATCAACAAAGAGAGTGGTGAAGTG

upper sequence: AT5G45430.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM5G864414_T02 (Zea mays), 3'ss of exon 4
gtaggtttgatttctctcatctttttctctattctttggcttccgagccgggtttatagtttgtgcttaattctcaatgccttatgcaattgtagGTATACATTACTCAAAGAAGTTGGTGACGGAACATTTGGGAATGTTTGGCGAGCTGTCAATAAACAGACGAATGAAGTT
||  |  || | | |  |       |    |    || |  | |   |   | |  | |  |||  |     ||   |     ||     |  || |||||| |  |||| ||||||||||| ||||||||||||| ||||||||| ||   ||||||  | |    |||||| 
gtgagaatggtctataaccagacgattataacaaattagaatactgtctaagctgtttggatgtcttcttaccttgtttttgcattgcgctccagATATACAATTATCAACGAAGTTGGTGATGGAACATTTGGGAGTGTTTGGCGTGCAACCAATAAGGAAAGCGGTGAAGTG
















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|125030295|gb|EL102564.1|EL102564
EST:     AGAGGCGATGGAGAG                         GTATACATTACTCAAAGAAGTTGGTGACGGAACATTTGGGAATGTTTGGCG
genomic: AGAGGCGATGGAGAGgtaggtttga ... gcaattgtagGTATACATTACTCAAAGAAGTTGGTGACGGAACATTTGGGAATGTTTGGCG
EST: gi|86059416|gb|DR355173.1|DR355173
EST:     CAGAGAAATACTTAAGGGGATACTTTGCTTCACCTAGAGGCGATGTAGAG                         GTATACATTACTCAAAGAAGTTGGTGACGGAACATTTGGGAATGTTTGGCG
genomic: CAGAGAAATACTTAAGGGGATACTTTGCTTCACCTAGAGGCGATGGAGAGgtaggtttga ... gcaattgtagGTATACATTACTCAAAGAAGTTGGTGACGGAACATTTGGGAATGTTTGGCG
EST: gi|86070348|gb|DR366105.1|DR366105
EST:     CAGAGAAATACTTAAGGGGATACTTTGCTTCACCTAGAGGCGATGGAGAG                         GT-TACATTACTCAAAGAAAGT-GGTGACGGAACATTTGGGAATGGTTGG
genomic: CAGAGAAATACTTAAGGGGATACTTTGCTTCACCTAGAGGCGATGGAGAGgtaggtttga ... gcaattgtagGTATACATTACTCAAAGAA-GTTGGTGACGGAACATTTGGGAATGTTTGG
EST: gi|116444408|gb|EG487000.1|EG487000
EST:     CAGAGAAATACTTAATGGGATACTTTGCTTCACCTAGAGGCGATGGAGAG                         GTATACATTACTCAAAGAAGTTGGTGACGGAACATTTGGGAATGTTTGGCG
genomic: CAGAGAAATACTTAAGGGGATACTTTGCTTCACCTAGAGGCGATGGAGAGgtaggtttga ... gcaattgtagGTATACATTACTCAAAGAAGTTGGTGACGGAACATTTGGGAATGTTTGGCG
EST: gi|116444419|gb|EG487011.1|EG487011
EST:     CAGAGAAATACTTAAGGGGATACTTTGCTTCACCTAGAGGCAATGGAGAG                         GTATACATTACTCAAAGAAGTTGGTGACGGAACATTTGGGAATGTTTGGCG
genomic: CAGAGAAATACTTAAGGGGATACTTTGCTTCACCTAGAGGCGATGGAGAGgtaggtttga ... gcaattgtagGTATACATTACTCAAAGAAGTTGGTGACGGAACATTTGGGAATGTTTGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccgagccgggtttatagtttgtgcttaattctcaatgccttatgcaattgtagGTATACATTACTCAAAGAAGTTGGTGACGGAACATTTGGGAATGTTTGGCGAGCTGTCAATAAACAGACGAATGAAGTT
                        gcttaat  putative branch site (score: 4)
            tttatagttt  TA-rich tract