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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaacaacagttacattactactttcaaagcgtaaactcgagacccttatgcgaaaatctctgtaccgtttcagGATTGCCCAATGCCAGAGCCTTCTGAGCTCTTTACCAATGTGTATGTGAAGGGATTTGGCACCGAG

Basic information

species Arabidopsis thaliana
transcript AT1G59900.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G59900.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv09s0018g01940.t01 (Vitis vinifera), 3'ss of exon 6
------------------------------------------------------------------------------gtaaaacaacagttacattactactttcaaagcgtaaactcgagacccttatgcg----aaaatctctgtaccgtttcagGATTGCCCAATGCCAGAGCCTTCTGAGCTCTTTACCAATGTGTATGTGAAGGGATTTGGCACCGAG
                                                                               ||  |||   ||  | ||  ||   |     | ||  |   |  | |||||||         | | | |    |  |||||  | ||||||||||| |||||||| ||||| ||||| || |||||||| || ||||| |  |||
gtaagaagatattgttatgttaatcttgattgttctgtagctctagtaaaagaacttcctcctgcccacatactataactagcacagttgtgtcctttttagactttgttcatatgccttatgcacttatgccctttgctgtttttctgttttaccagGAAAGTCCAATGCCAGATCCTTCTGAACTCTTCACCAACGTATATGTGAAAGGTTTTGGGATTGAG

upper sequence: AT1G59900.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv01s0026g00990.t01 (Vitis vinifera), 3'ss of exon 6
-------------------------------------------------------------------------------gtaaaacaacagttacattactactttcaaagcgtaaactcgagacccttatgcgaaaatctctgtaccgtttcagGATTGCCCAATGCCAGAGCCTTCTGAGCTCTTTACCAATGTGTATGTGAAGGGATTTGGCACCGAG
                                                                               ||   |||  ||   | ||   |  |      | ||  || ||  ||||| |||     | | | |    |  |||||  |  ||||||| ||||||||||| ||||| |||||||| |||||||| || ||||| |  |||
gtaagaagcatcttgcaatgttaatcttgatttttctgtagccctagtaaaagaacttccgcttgcccacatgttataggttgcacagtaggatctttttcagatattgttcatatgcttgatgccctt-tgc---tgtttttctgttttaccagGAAAGTTCAATGCCGGAGCCTTCTGAACTCTTCACCAATGTATATGTGAAAGGTTTTGGGATTGAG
















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|164204319|gb|ES012570.1|ES012570
EST:     TGGAGAAGGAAATTAGAAAAGAAGTAGATGACGCCATTGCCAAAGCTAAG                         GATTGCCCAATGCCAGAGCCTTCTGAGCTCTTTACCAA
genomic: TGGAGAAGGAAATTAGAAAAGAAGTAGATGACGCCATTGCCAAAGCTAAGgtaaaacaac ... accgtttcagGATTGCCCAATGCCAGAGCCTTCTGAGCTCTTTACCAA
EST: gi|124739960|gb|EH831122.1|EH831122
EST:     AGAAGGAAATTAGAAAAGAAGTAGATGACGCCATTGCCAAAGCTAAG                         GATTGCCCAATGCCAGAGCCTTCTGAGCTCTTTACCAATGTGTATGTGAAG
genomic: AGAAGGAAATTAGAAAAGAAGTAGATGACGCCATTGCCAAAGCTAAGgtaaaacaac ... accgtttcagGATTGCCCAATGCCAGAGCCTTCTGAGCTCTTTACCAATGTGTATGTGAAG
EST: gi|164056257|gb|ES149172.1|ES149172
EST:     GAAGG-AATTAGAAAAGAAGTAGATGACGCCATTGTCCAAAGCTAAG                         GATTGCCCAATGCCAGAGCCTTCTGAGCTCTTTACCAATGTGTATGTGAAG
genomic: GAAGGAAATTAGAAAAGAAGTAGATGACGCCATTG-CCAAAGCTAAGgtaaaacaac ... accgtttcagGATTGCCCAATGCCAGAGCCTTCTGAGCTCTTTACCAATGTGTATGTGAAG
EST: gi|164061722|gb|ES117889.1|ES117889
EST:     CGCCATTGCCAAAGCTAAG                         GATTGCCCAATGCCAGAGCCTTCTGAGCTCTTTACCAATGTGTATGTGAAG
genomic: CGCCATTGCCAAAGCTAAGgtaaaacaac ... accgtttcagGATTGCCCAATGCCAGAGCCTTCTGAGCTCTTTACCAATGTGTATGTGAAG
EST: gi|124766215|gb|EH856345.1|EH856345
EST:     CCATTGCCAAAGCTAAG                         GATTGCCCAATGCCAGAGCCTTCTGAGCTCTTTACCAATGTGTATGTGAAG
genomic: CCATTGCCAAAGCTAAGgtaaaacaac ... accgtttcagGATTGCCCAATGCCAGAGCCTTCTGAGCTCTTTACCAATGTGTATGTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactttcaaagcgtaaactcgagacccttatgcgaaaatctctgtaccgtttcagGATTGCCCAATGCCAGAGCCTTCTGAGCTCTTTACCAATGTGTATGTGAAGGGATTTGGCACCGAG
                                              ccgtttc  CT-rich tract
                                  aaaatct  TA-rich tract