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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttttttttttaatattgagagctcactaacttggactagttgatagtctttctctttctgattggatttatttattgtgtttggcgtgattgtggacataacatttgtctactgctaaaaacctccatctgatcaagaatttttattggtgtcatagCTGAGAAATTTGGTATGGGCAACTTCTAAGCACGACGTGTATCTTATGTCAAATTTTCTGGTTACACATTATTCTTCTCTAACGTCTGGAAAGCATGAAG

Basic information

species Arabidopsis thaliana
transcript AT3G13340.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G13340.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G109039_T03 (Zea mays), 3'ss of exon 4
gttttttttttttaatattgagagctcactaacttggactagttgatagtctttctctttctgattggatttatttattgtgtttggcgtgattgtggacataacatttgtctactgctaaaaacctccatctgatcaagaatttttattggtgtcatagCTGAGAAATTTGGTATGGGCAACTTCTAAGCACGACGTGTATCTTATGTCAAATTTTCTGGTTACACATTATTCTTCTCTAACGTCTGGAAAGCATGAAG
                                                       |     || |        ||| ||   | | ||    |  |  | ||    || || || | ||  ||      ||   |  |||||| |   |||       |||| |||||||||||||||||||| || ||||||||| | || ||  | ||  |||      ||   || |  ||  |  | |    ||   |   |||| 
-------------------------------------------------------ttgagatggtcttgaacttttgttcaatgttgccctctcttttatatggttttggtataatactgtaa-----tatgaaacaaagaatctgatttgtgcctgcagCTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCTCATTACTCAATTCGTCACTGGTCAGCATTGAGTGGTGTGGATACTGAAC

upper sequence: AT3G13340.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S376_49V6.1 (Physcomitrella patens), 3'ss of exon 4
gttttttttttttaatattgagagctcactaacttggactagttgatagtctttctctttctgattggatttatttattgtgtttggcgtgattgtggacataacatttgtctactgctaaaaacctccatctgatcaagaatttttattggtgtcatagCTGAGAAATTTGGTATGGGCAACTTCTAAGCACGACGTGTATCTTATGTCAAATTTTCTGGTTACACATTATTCTTCTCTAACGTCTGGAAAGCATGAAG
                                                             ||||    |      ||| |    ||      ||| |  ||     || | |  || |   ||      | |  | | |  |   |  || |     || || ||||| | |||||||| ||||| |||||||||||||||||||||   |  | |   || |  || |  ||  || | ||      |     |||||
--------------------------------------------------------accattgatgacttcctgacattttacacggatattatgtaggaatctggattatttgttgtttttaaatcgtttttattgatgggtggatgctgat----cagTTGCGAAATCTAGTATGGGCCACTTCCAAGCACGACGTGTATCTTATGCACAGCTATTCCGTGATGCACTGGTCGCCTATTACCAAGAAAGGAACTGAAG
















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|47831951|gb|CK121635.1|CK121635
EST:     ACTTCTGGCGGAATTCACGATCTATTAAGTCTACTATACTACATTTCCAG                         CTGAGAAATTTGGTATGGGCAACTTCTAAGCACGACGTGTATCTTATGTCA
genomic: ACTTCTGGCGGAATTCACGATCTATTAAGTCTACTATACTACATTTCCAGgttttttttt ... ggtgtcatagCTGAGAAATTTGGTATGGGCAACTTCTAAGCACGACGTGTATCTTATGTCA
EST: gi|164025595|gb|ES121623.1|ES121623
EST:     ACTTCTGGCGGAATTCACGATCTATTAAGTCTACTATACTACATTTCCAG                         CTGAGAAATTTGGTATGG
genomic: ACTTCTGGCGGAATTCACGATCTATTAAGTCTACTATACTACATTTCCAGgttttttttt ... ggtgtcatagCTGAGAAATTTGGTATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgtctactgctaaaaacctccatctgatcaagaatttttattggtgtcatagCTGAGAAATTTGGTATGGGCAACTTCTAAGCACGACGTGTATCTTATGTCAAATTTTCTGGTTACACATTATTCTTCTCTAACGTCTGGAAAGCATGAAG
                             atcaagaatttttatt  TA-rich tract